Citrus Sinensis ID: 043204

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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----
Protein Sequence
MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msvrwprlltpTYLSQIIKKQKSPLTALKIFKEAKEkypnyrhngpvyASMIGILSESNRITEMKEVIDqmkgdsceckdSVFATAIRTYARAGQLNEAVSLFKNlsqfncvnWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQemdfqgcypdreSYHILMKGLCNDRRLNEATHLLYSMFWRisqkgsgedIVIYRTLLFALCDQGKIQDAMQILEKILRKglkapksrrhridlcpcndgediEGAKSLINEALirggipslasYSAMAIDLYnegrivegdkvldemrtkgfwpSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSkqvgcvangeTYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIsqaklpdisVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Flexible Loop (DISEMBL)
msvrwprllTPTYLsqiikkqksplTALKIFKEAKekypnyrhngPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILrkglkapksrrhridlcpcndgedIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEemvkgtfvPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Low Complexity Region (SEG)
MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Disordered region (IsUnstruct)
****WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTL*******
Disordered Region (DISOPRED)
*SVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Disordered Region (DISEMBL)
MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
Disordered Region (DISPRO)
**VRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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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)
MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS
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	504	2.2.26 [Sep-21-2011]
Q9SYK1	504	Pentatricopeptide repeat-	yes	no	0.968	0.968	0.648	0.0
Q9CA58	763	Putative pentatricopeptid	no	no	0.920	0.608	0.259	7e-44
O49436	660	Pentatricopeptide repeat-	no	no	0.902	0.689	0.270	1e-40
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.865	0.923	0.257	4e-40
Q9SS81	687	Pentatricopeptide repeat-	no	no	0.928	0.681	0.249	3e-39
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.910	0.608	0.25	3e-38
Q9M907	871	Pentatricopeptide repeat-	no	no	0.773	0.447	0.264	4e-37
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.910	0.628	0.253	5e-37
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.793	0.535	0.257	5e-37
Q9SHK2	500	Pentatricopeptide repeat-	no	no	0.769	0.776	0.28	2e-35

>sp|Q9SYK1|PPR11_ARATH Pentatricopeptide repeat-containing protein At1g05600 OS=Arabidopsis thaliana GN=At1g05600 PE=2 SV=1

 Score =  654 bits (1687), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/489 (64%), Positives = 396/489 (80%), Gaps = 1/489 (0%)

Query: 3   VRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRIT 62
           VRWPR+LTP+ LSQI+KKQK+P+TALK+F+EAKE++P+Y HNG VYA+MI IL +SNR+ 
Sbjct: 4   VRWPRVLTPSLLSQILKKQKNPVTALKLFEEAKERFPSYGHNGSVYATMIDILGKSNRVL 63

Query: 63  EMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL 122
           EMK VI++MK DSCECKDSVFA+ IRT++RAG+L +A+SLFK+L +FNCVNW+ SF+TLL
Sbjct: 64  EMKYVIERMKEDSCECKDSVFASVIRTFSRAGRLEDAISLFKSLHEFNCVNWSLSFDTLL 123

Query: 123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC 182
           +EMVKES+LEAA  +F + CYGWEV SRI +LNLLM VLCQ  RSDLA  VFQEM++QGC
Sbjct: 124 QEMVKESELEAACHIFRKYCYGWEVNSRITALNLLMKVLCQVNRSDLASQVFQEMNYQGC 183

Query: 183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ 242
           YPDR+SY ILMKG C + +L EATHLLYSMFWRISQKGSGEDIV+YR LL ALCD G++ 
Sbjct: 184 YPDRDSYRILMKGFCLEGKLEEATHLLYSMFWRISQKGSGEDIVVYRILLDALCDAGEVD 243

Query: 243 DAMQILEKILRKGLKAPKSRRHRIDLCPC-NDGEDIEGAKSLINEALIRGGIPSLASYSA 301
           DA++IL KILRKGLKAPK   H I+     +  E IE  K L+ E LIRG IP L SYSA
Sbjct: 244 DAIEILGKILRKGLKAPKRCYHHIEAGHWESSSEGIERVKRLLTETLIRGAIPCLDSYSA 303

Query: 302 MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG 361
           MA DL+ EG++VEG++VL  MR+KGF P+  +Y AK+ AL + G + EA+ VI +EM++G
Sbjct: 304 MATDLFEEGKLVEGEEVLLAMRSKGFEPTPFIYGAKVKALCRAGKLKEAVSVINKEMMQG 363

Query: 362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE 421
             +PTV VYN+L+KGLCD G S  AV YLKKMSKQV CVAN ETY  LVDGLCRDG+FLE
Sbjct: 364 HCLPTVGVYNVLIKGLCDDGKSMEAVGYLKKMSKQVSCVANEETYQTLVDGLCRDGQFLE 423

Query: 422 ASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA 481
           AS+V+EEMLI+S++P VETY+++I+GLC + ++YEAVMWLEEM+SQ  +P+ SVW +L  
Sbjct: 424 ASQVMEEMLIKSHFPGVETYHMMIKGLCDMDRRYEAVMWLEEMVSQDMVPESSVWKALAE 483

Query: 482 SVCCNTADL 490
           SVC    D+
Sbjct: 484 SVCFCAIDV 492

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA58|PP120_ARATH Putative pentatricopeptide repeat-containing protein At1g74580 OS=Arabidopsis thaliana GN=At1g74580 PE=3 SV=1

 Score =  179 bits (453), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 124/477 (25%), Positives = 231/477 (48%), Gaps = 13/477 (2%)

Query: 6   PRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMK 65
           P LL P +++ +IK QK P+ AL++F   + K   ++H    Y S+I  L    +   M+
Sbjct: 3   PPLL-PKHVTAVIKCQKDPMKALEMFNSMR-KEVGFKHTLSTYRSVIEKLGYYGKFEAME 60

Query: 66  EVIDQMKGD-SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE 124
           EV+  M+ +      + V+  A++ Y R G++ EAV++F+ +  ++C     S+N ++  
Sbjct: 61  EVLVDMRENVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSV 120

Query: 125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP 184
           +V     + AH +++R      +   + S  + M   C+  R   AL +   M  QGC  
Sbjct: 121 LVDSGYFDQAHKVYMRM-RDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEM 179

Query: 185 DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDA 244
           +  +Y  ++ G   +    E     Y +F ++   G    +  +  LL  LC +G +++ 
Sbjct: 180 NVVAYCTVVGGFYEENFKAEG----YELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKEC 235

Query: 245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAI 304
            ++L+K++++G+       +      C  GE ++GA  ++   + +G  P + +Y+ +  
Sbjct: 236 EKLLDKVIKRGVLPNLFTYNLFIQGLCQRGE-LDGAVRMVGCLIEQGPKPDVITYNNLIY 294

Query: 305 DLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFV 364
            L    +  E +  L +M  +G  P    Y   +A   K GMV  A  ++ + +  G FV
Sbjct: 295 GLCKNSKFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNG-FV 353

Query: 365 PTVRVYNILLKGLCDAGNSAVAV-MYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEAS 423
           P    Y  L+ GLC  G +  A+ ++ + + K  G   N   Y  L+ GL   G  LEA+
Sbjct: 354 PDQFTYRSLIDGLCHEGETNRALALFNEALGK--GIKPNVILYNTLIKGLSNQGMILEAA 411

Query: 424 RVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           ++  EM  +   P V+T+N+L+ GLC +G   +A   ++ MIS+   PDI  ++ L+
Sbjct: 412 QLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILI 468

Arabidopsis thaliana (taxid: 3702)

>sp|O49436|PP327_ARATH Pentatricopeptide repeat-containing protein At4g20090 OS=Arabidopsis thaliana GN=EMB1025 PE=3 SV=1

 Score =  168 bits (425), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 127/470 (27%), Positives = 225/470 (47%), Gaps = 15/470 (3%)

Query: 22  KSPLTAL---KIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCEC 78
           ++PL A    K+FK A  K  +++      +SMI   + S     +++++ +++ ++   
Sbjct: 52  ENPLEAPISEKMFKSA-PKMGSFKLGDSTLSSMIESYANSGDFDSVEKLLSRIRLENRVI 110

Query: 79  KDSVFATAIRTYARAGQLNEAVSLFKNL-SQFNCVNWTQSFNTLLKEMVKESKLEAAHIL 137
            +  F    R Y +A   ++AV LF  +  +F C    +SFN++L  ++ E         
Sbjct: 111 IERSFIVVFRAYGKAHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVIINEGLYHRGLEF 170

Query: 138 F---LRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMK 194
           +   + S     +     S NL++  LC+ R  D A+ VF+ M  + C PD  +Y  LM 
Sbjct: 171 YDYVVNSNMNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCLPDGYTYCTLMD 230

Query: 195 GLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK 254
           GLC + R++EA  LL  M      +G     VIY  L+  LC +G +    ++++ +  K
Sbjct: 231 GLCKEERIDEAVLLLDEM----QSEGCSPSPVIYNVLIDGLCKKGDLTRVTKLVDNMFLK 286

Query: 255 GLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVE 314
           G    +   + +    C  G+ ++ A SL+   +    IP+  +Y  +   L  + R  +
Sbjct: 287 GCVPNEVTYNTLIHGLCLKGK-LDKAVSLLERMVSSKCIPNDVTYGTLINGLVKQRRATD 345

Query: 315 GDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILL 374
             ++L  M  +G+  +  +Y   ++ LFK+G  +EA+ +  +   KG   P + VY++L+
Sbjct: 346 AVRLLSSMEERGYHLNQHIYSVLISGLFKEGKAEEAMSLWRKMAEKGC-KPNIVVYSVLV 404

Query: 375 KGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSY 434
            GLC  G    A   L +M    GC+ N  TY  L+ G  + G   EA +V +EM     
Sbjct: 405 DGLCREGKPNEAKEILNRMIAS-GCLPNAYTYSSLMKGFFKTGLCEEAVQVWKEMDKTGC 463

Query: 435 WPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
                 Y+VLI GLC +G+  EA+M   +M++    PD   +SS++  +C
Sbjct: 464 SRNKFCYSVLIDGLCGVGRVKEAMMVWSKMLTIGIKPDTVAYSSIIKGLC 513

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  166 bits (420), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 117/454 (25%), Positives = 221/454 (48%), Gaps = 18/454 (3%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPN-YRHNGPVYASMIGILSESN 59
           M  +W + +TP+ + ++++ +K    ++ +F  A  +Y N Y H+   +  M+  L  +N
Sbjct: 6   MMFKWSKNITPSQVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSAN 65

Query: 60  RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFN 119
           +    +++I +MK ++C   + +  +  R Y R  +  +++ +F  +  F+C    +++ 
Sbjct: 66  KFKAAEDLIVRMKIENCVVSEDILLSICRGYGRVHRPFDSLRVFHKMKDFDCDPSQKAYV 125

Query: 120 TLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS-DLALHVFQEMD 178
           T+L  +V+E++L  A   F ++     +   + SLN+L+  LC+   + D  L +F EM 
Sbjct: 126 TVLAILVEENQLNLA-FKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMP 184

Query: 179 FQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ 238
            +GC PD  +Y  L+ GLC   R++EA  L    F  + +K     +V Y +L+  LC  
Sbjct: 185 KRGCDPDSYTYGTLISGLCRFGRIDEAKKL----FTEMVEKDCAPTVVTYTSLINGLCGS 240

Query: 239 GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLAS 298
             + +AM+ LE++  KG++        +    C DG  ++ A  L    + RG  P++ +
Sbjct: 241 KNVDEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQ-AMELFEMMMARGCRPNMVT 299

Query: 299 YSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEM 358
           Y+ +   L  E +I E  ++LD M  +G  P   +Y   ++         EA   + +EM
Sbjct: 300 YTTLITGLCKEQKIQEAVELLDRMNLQGLKPDAGLYGKVISGFCAISKFREAANFL-DEM 358

Query: 359 VKGTFVPT-------VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVD 411
           + G   P        V+  N +++GLC    S    +YL   S+  G     ET   LV 
Sbjct: 359 ILGGITPNRLTWNIHVKTSNEVVRGLCANYPSRAFTLYLSMRSR--GISVEVETLESLVK 416

Query: 412 GLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLI 445
            LC+ G F +A ++++E++     P   T+ +LI
Sbjct: 417 CLCKKGEFQKAVQLVDEIVTDGCIPSKGTWKLLI 450

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS81|PP221_ARATH Pentatricopeptide repeat-containing protein At3g09060 OS=Arabidopsis thaliana GN=At3g09060 PE=2 SV=1

 Score =  163 bits (412), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 139/558 (24%), Positives = 243/558 (43%), Gaps = 90/558 (16%)

Query: 3   VRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRIT 62
           V +P+ L+P ++ +++K +K+P  A  +F  A  ++P Y H+  VY  ++  LSE+  + 
Sbjct: 2   VVFPKSLSPKHVLKLLKSEKNPRAAFALFDSAT-RHPGYAHSAVVYHHILRRLSETRMVN 60

Query: 63  EMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ-FNCVNWTQSFNTL 121
            +  +++ ++   C+C + V  + I+TY +    ++A+ +FK + + F C    +S+NTL
Sbjct: 61  HVSRIVELIRSQECKCDEDVALSVIKTYGKNSMPDQALDVFKRMREIFGCEPAIRSYNTL 120

Query: 122 LKEMVKESKLEAAHILFLRSCYGW----EVKSRIQSLNLLMDVLCQCRRSDLALHVFQEM 177
           L   V     EA   + + S + +     V   +Q+ N+L+ + C+ +  + A      M
Sbjct: 121 LNAFV-----EAKQWVKVESLFAYFETAGVAPNLQTYNVLIKMSCKKKEFEKARGFLDWM 175

Query: 178 DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD 237
             +G  PD  SY  ++  L    +L++A  L    F  +S++G   D+  Y  L+     
Sbjct: 176 WKEGFKPDVFSYSTVINDLAKAGKLDDALEL----FDEMSERGVAPDVTCYNILIDGFLK 231

Query: 238 QGKIQDAMQILEKILRKGLKAPKSRRH-----------RIDLCP---------------- 270
           +   + AM++ +++L      P  + H           R+D C                 
Sbjct: 232 EKDHKTAMELWDRLLEDSSVYPNVKTHNIMISGLSKCGRVDDCLKIWERMKQNEREKDLY 291

Query: 271 ---------CNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDE 321
                    C+ G +++ A+S+ NE   R     + +Y+ M       G+I E  ++   
Sbjct: 292 TYSSLIHGLCDAG-NVDKAESVFNELDERKASIDVVTYNTMLGGFCRCGKIKESLELWRI 350

Query: 322 MRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG 381
           M  K    ++V Y   +  L ++G +DEA  +      KG +      Y I + GLC  G
Sbjct: 351 MEHKNS-VNIVSYNILIKGLLENGKIDEATMIWRLMPAKG-YAADKTTYGIFIHGLCVNG 408

Query: 382 --NSAVAVM---------------------------------YLKKMSKQVGCVANGETY 406
             N A+ VM                                  +K+MSK  G   N    
Sbjct: 409 YVNKALGVMQEVESSGGHLDVYAYASIIDCLCKKKRLEEASNLVKEMSKH-GVELNSHVC 467

Query: 407 GILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS 466
             L+ GL RD R  EAS  L EM      P V +YN+LI GLC  GK  EA  +++EM+ 
Sbjct: 468 NALIGGLIRDSRLGEASFFLREMGKNGCRPTVVSYNILICGLCKAGKFGEASAFVKEMLE 527

Query: 467 QAKLPDISVWSSLVASVC 484
               PD+  +S L+  +C
Sbjct: 528 NGWKPDLKTYSILLCGLC 545

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  160 bits (404), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 117/468 (25%), Positives = 220/468 (47%), Gaps = 9/468 (1%)

Query: 18  IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCE 77
           ++ Q     AL++F  A +K PN+     +Y  ++  L  S    +MK++++ MK   CE
Sbjct: 57  LRSQPDDSAALRLFNLASKK-PNFSPEPALYEEILLRLGRSGSFDDMKKILEDMKSSRCE 115

Query: 78  CKDSVFATAIRTYARAGQLNEAVSLFK-NLSQFNCVNWTQSFNTLLKEMVKESKLEAAHI 136
              S F   I +YA+    +E +S+    + +F     T  +N +L  +V  + L+   I
Sbjct: 116 MGTSTFLILIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYNRMLNLLVDGNSLKLVEI 175

Query: 137 LFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGL 196
              +    W +K  + + N+L+  LC+  +   A+ + ++M   G  PD +++  +M+G 
Sbjct: 176 SHAKMSV-WGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGY 234

Query: 197 CNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGL 256
             +  L+ A  +   M     + G     V    ++   C +G+++DA+  ++++  +  
Sbjct: 235 IEEGDLDGALRIREQMV----EFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDG 290

Query: 257 KAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGD 316
             P        +        ++ A  +++  L  G  P + +Y+++   L   G + E  
Sbjct: 291 FFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAV 350

Query: 317 KVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKG 376
           +VLD+M T+   P+ V Y   ++ L K+  V+EA E+      KG  +P V  +N L++G
Sbjct: 351 EVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKG-ILPDVCTFNSLIQG 409

Query: 377 LCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWP 436
           LC   N  VA+   ++M  + GC  +  TY +L+D LC  G+  EA  +L++M +     
Sbjct: 410 LCLTRNHRVAMELFEEMRSK-GCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCAR 468

Query: 437 CVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
            V TYN LI G C   K  EA    +EM       +   +++L+  +C
Sbjct: 469 SVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLC 516

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M907|PP217_ARATH Pentatricopeptide repeat-containing protein At3g06920 OS=Arabidopsis thaliana GN=At3g06920 PE=2 SV=1

 Score =  156 bits (394), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 115/434 (26%), Positives = 204/434 (47%), Gaps = 44/434 (10%)

Query: 47  VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNL 106
            Y SMIG+L ++NR+ E  E+ + ++ +        + T I  Y  AG+ +EA SL +  
Sbjct: 275 TYTSMIGVLCKANRLDEAVEMFEHLEKNRRVPCTYAYNTMIMGYGSAGKFDEAYSLLERQ 334

Query: 107 SQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR 166
                +    ++N +L  + K  K++ A  +F       +    + + N+L+D+LC+  +
Sbjct: 335 RAKGSIPSVIAYNCILTCLRKMGKVDEALKVFEE--MKKDAAPNLSTYNILIDMLCRAGK 392

Query: 167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIV 226
            D A  +   M   G +P+  + +I++  LC  ++L+EA     +MF  +  K    D +
Sbjct: 393 LDTAFELRDSMQKAGLFPNVRTVNIMVDRLCKSQKLDEAC----AMFEEMDYKVCTPDEI 448

Query: 227 IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINE 286
            + +L+  L   G++ DA ++ EK+L                C  N         S++  
Sbjct: 449 TFCSLIDGLGKVGRVDDAYKVYEKMLDSD-------------CRTN---------SIVYT 486

Query: 287 ALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM 346
           +LI+              + +N GR  +G K+  +M  +   P L +    +  +FK G 
Sbjct: 487 SLIK--------------NFFNHGRKEDGHKIYKDMINQNCSPDLQLLNTYMDCMFKAGE 532

Query: 347 VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETY 406
            ++   + EE   +  FVP  R Y+IL+ GL  AG +         M +Q GCV +   Y
Sbjct: 533 PEKGRAMFEEIKAR-RFVPDARSYSILIHGLIKAGFANETYELFYSMKEQ-GCVLDTRAY 590

Query: 407 GILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS 466
            I++DG C+ G+  +A ++LEEM  + + P V TY  +I GL  I +  EA M  EE  S
Sbjct: 591 NIVIDGFCKCGKVNKAYQLLEEMKTKGFEPTVVTYGSVIDGLAKIDRLDEAYMLFEEAKS 650

Query: 467 QAKLPDISVWSSLV 480
           +    ++ ++SSL+
Sbjct: 651 KRIELNVVIYSSLI 664

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score =  155 bits (393), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 120/474 (25%), Positives = 216/474 (45%), Gaps = 15/474 (3%)

Query: 9   LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVI 68
           +TP  L ++++   +  T++++F     +   YRH+  VY  +IG L  +     +  ++
Sbjct: 76  ITPFQLYKLLELPLNVSTSMELFSWTGSQ-NGYRHSFDVYQVLIGKLGANGEFKTIDRLL 134

Query: 69  DQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ-FNCVNWTQSFNTLLKEMVK 127
            QMK +    K+S+F + +R Y +AG   +   L   +   ++C    +S+N +L+ +V 
Sbjct: 135 IQMKDEGIVFKESLFISIMRDYDKAGFPGQTTRLMLEMRNVYSCEPTFKSYNVVLEILVS 194

Query: 128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE 187
            +  + A  +F       ++   + +  ++M   C     D AL + ++M   GC P+  
Sbjct: 195 GNCHKVAANVFY-DMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRDMTKHGCVPNSV 253

Query: 188 SYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQI 247
            Y  L+  L    R+NEA  LL  MF      G   D   +  ++  LC   +I +A ++
Sbjct: 254 IYQTLIHSLSKCNRVNEALQLLEEMFL----MGCVPDAETFNDVILGLCKFDRINEAAKM 309

Query: 248 LEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLY 307
           + ++L +G          +    C  G  ++ AK L      R   P +  ++ +     
Sbjct: 310 VNRMLIRGFAPDDITYGYLMNGLCKIGR-VDAAKDL----FYRIPKPEIVIFNTLIHGFV 364

Query: 308 NEGRIVEGDKVLDEMRTK-GFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT 366
             GR+ +   VL +M T  G  P +  Y + +   +K+G+V  ALEV+ +   KG   P 
Sbjct: 365 THGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGC-KPN 423

Query: 367 VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVL 426
           V  Y IL+ G C  G    A   L +MS   G   N   +  L+   C++ R  EA  + 
Sbjct: 424 VYSYTILVDGFCKLGKIDEAYNVLNEMSAD-GLKPNTVGFNCLISAFCKEHRIPEAVEIF 482

Query: 427 EEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
            EM  +   P V T+N LI GLC + +   A+  L +MIS+  + +   +++L+
Sbjct: 483 REMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLI 536

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  155 bits (393), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 107/415 (25%), Positives = 202/415 (48%), Gaps = 15/415 (3%)

Query: 74  DSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA 133
           D C    SVF   +++Y+R   +++A+S+         +    S+N +L   ++  +   
Sbjct: 128 DLCYSTSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKR--- 184

Query: 134 AHILFLRSCYGWEVKSRIQ----SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESY 189
            +I F  + +   ++S++     + N+L+   C     D+AL +F +M+ +GC P+  +Y
Sbjct: 185 -NISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTY 243

Query: 190 HILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILE 249
           + L+ G C  R++++   LL SM    + KG   +++ Y  ++  LC +G++++   +L 
Sbjct: 244 NTLIDGYCKLRKIDDGFKLLRSM----ALKGLEPNLISYNVVINGLCREGRMKEVSFVLT 299

Query: 250 KILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE 309
           ++ R+G    +   + +    C +G +   A  +  E L  G  PS+ +Y+++   +   
Sbjct: 300 EMNRRGYSLDEVTYNTLIKGYCKEG-NFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKA 358

Query: 310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV 369
           G +    + LD+MR +G  P+   Y   +    + G ++EA  V+ E M    F P+V  
Sbjct: 359 GNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLRE-MNDNGFSPSVVT 417

Query: 370 YNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEM 429
           YN L+ G C  G    A+  L+ M K+ G   +  +Y  ++ G CR     EA RV  EM
Sbjct: 418 YNALINGHCVTGKMEDAIAVLEDM-KEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREM 476

Query: 430 LIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
           + +   P   TY+ LI+G C   +  EA    EEM+     PD   +++L+ + C
Sbjct: 477 VEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYC 531

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SHK2|PPR17_ARATH Pentatricopeptide repeat-containing protein At1g06580 OS=Arabidopsis thaliana GN=At1g06580 PE=2 SV=1

 Score =  150 bits (379), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 112/400 (28%), Positives = 203/400 (50%), Gaps = 12/400 (3%)

Query: 87  IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWE 146
           +R+   + + N+A++LF ++++ + +     F+ LL  + K +K EA   LF R      
Sbjct: 51  LRSGLHSIKFNDALTLFCDMAESHPLPSIVDFSRLLIAIAKLNKYEAVISLF-RHLEMLG 109

Query: 147 VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEAT 206
           +   + S   L+D  C+C R  LAL    +M   G  P   ++  L+ G C+  R  EA 
Sbjct: 110 ISHDLYSFTTLIDCFCRCARLSLALSCLGKMMKLGFEPSIVTFGSLVNGFCHVNRFYEAM 169

Query: 207 HLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRI 266
               S+  +I   G   ++VIY T++ +LC++G++  A+ +L+ + + G++      + +
Sbjct: 170 ----SLVDQIVGLGYEPNVVIYNTIIDSLCEKGQVNTALDVLKHMKKMGIRPDVVTYNSL 225

Query: 267 DLCPCNDGEDIEGAKSLINEALIRGGI-PSLASYSAMAIDLYN-EGRIVEGDKVLDEMRT 324
                + G    G  + I   ++R GI P + ++SA+ ID+Y  EG+++E  K  +EM  
Sbjct: 226 ITRLFHSGT--WGVSARILSDMMRMGISPDVITFSAL-IDVYGKEGQLLEAKKQYNEMIQ 282

Query: 325 KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSA 384
           +   P++V Y + +  L   G++DEA +V+   + KG F P    YN L+ G C A    
Sbjct: 283 RSVNPNIVTYNSLINGLCIHGLLDEAKKVLNVLVSKG-FFPNAVTYNTLINGYCKAKRVD 341

Query: 385 VAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVL 444
             +  L  MS+  G   +  TY  L  G C+ G+F  A +VL  M+     P + T+N+L
Sbjct: 342 DGMKILCVMSRD-GVDGDTFTYNTLYQGYCQAGKFSAAEKVLGRMVSCGVHPDMYTFNIL 400

Query: 445 IRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
           + GLC  GK  +A++ LE++     +  I  ++ ++  +C
Sbjct: 401 LDGLCDHGKIGKALVRLEDLQKSKTVVGIITYNIIIKGLC 440

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	504
224064366	503	predicted protein [Populus trichocarpa]	0.996	0.998	0.721	0.0
255548031	504	pentatricopeptide repeat-containing prot	1.0	1.0	0.720	0.0
225466731	503	PREDICTED: pentatricopeptide repeat-cont	0.996	0.998	0.701	0.0
356531124	502	PREDICTED: pentatricopeptide repeat-cont	0.994	0.998	0.647	0.0
357488057	504	Pentatricopeptide repeat-containing prot	0.994	0.994	0.633	0.0
449445756	497	PREDICTED: pentatricopeptide repeat-cont	0.984	0.997	0.646	0.0
297843350	503	pentatricopeptide repeat-containing prot	0.972	0.974	0.647	0.0
15220591	504	pentatricopeptide repeat-containing prot	0.968	0.968	0.648	0.0
357499195	576	Pentatricopeptide repeat-containing prot	0.956	0.836	0.604	1e-176
296089005	466	unnamed protein product [Vitis vinifera]	0.912	0.987	0.577	1e-153

>gi|224064366|ref|XP_002301440.1| predicted protein [Populus trichocarpa] gi|222843166|gb|EEE80713.1| predicted protein [Populus trichocarpa]

 Score =  768 bits (1982), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 362/502 (72%), Positives = 429/502 (85%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MS+RWPRLLTPT LSQI++ QK+PLTAL+IFK+AK+KYP+Y HNGPVYA+MI IL  S+R
Sbjct: 1   MSIRWPRLLTPTQLSQILRSQKNPLTALQIFKDAKDKYPSYHHNGPVYATMISILGNSDR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           I EMKEVIDQM+ DSCECKDSVF TAI+TYA AGQ++EAVSLFKN+ +FNCVNWT+SFNT
Sbjct: 61  IAEMKEVIDQMRDDSCECKDSVFVTAIKTYASAGQISEAVSLFKNIPKFNCVNWTESFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ +VKESKLE AH  FL +  GWEVKSRI++LNLL+DVLCQ  RSDLAL +FQEMD+Q
Sbjct: 121 LLQILVKESKLETAHRFFLENSCGWEVKSRIRALNLLLDVLCQRNRSDLALQIFQEMDYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
           GCYP+R+SY ILM+GLC D RLNEATHLLYSMFWRISQKGSGEDIV+YRTLL ALCD G+
Sbjct: 181 GCYPNRDSYRILMRGLCEDGRLNEATHLLYSMFWRISQKGSGEDIVVYRTLLDALCDNGQ 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
           +++AM+IL KILRKGLKAPK  RHR+DL  CN+ EDIE  K LINEALIRGG+PSLASY+
Sbjct: 241 VEEAMEILGKILRKGLKAPKRYRHRLDLSQCNNCEDIEATKLLINEALIRGGVPSLASYT 300

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           AMA+DLY EG+  + DKVLDE + +G+ PSL  YEAK+ AL + G   EA+ VIE EMV+
Sbjct: 301 AMAVDLYCEGKTGQADKVLDETQERGYRPSLRTYEAKVTALCRQGRSGEAINVIEREMVE 360

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
              VP VR+YN+LLKGLCDAGNSA+AV YLK+M+KQVGCVAN ETYGILVDGLCRDGRF+
Sbjct: 361 RNSVPNVRLYNVLLKGLCDAGNSAIAVSYLKRMAKQVGCVANQETYGILVDGLCRDGRFV 420

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           EAS+VLEEMLI+SYWP  +TYN+LIRGL S+G+QYEAV+WLEEM+SQ KLP++ VW SLV
Sbjct: 421 EASKVLEEMLIKSYWPPADTYNILIRGLSSMGRQYEAVIWLEEMVSQDKLPELYVWRSLV 480

Query: 481 ASVCCNTADLNVCRKTLEQLSS 502
            SVCCN   ++V  +T  QL S
Sbjct: 481 TSVCCNMVAVDVSCETFNQLIS 502

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548031|ref|XP_002515072.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223545552|gb|EEF47056.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  764 bits (1972), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/504 (72%), Positives = 428/504 (84%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           M+VRWPRLLTPT+LSQII+ QK+PL AL+IFKEAK+KYPNYRHNGPVYA+MIGIL  S R
Sbjct: 1   MTVRWPRLLTPTHLSQIIRNQKNPLIALRIFKEAKDKYPNYRHNGPVYATMIGILGSSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           ITEMKEV+DQM+ DSCECKDS+FA AI+TYAR G LNEA+SLFKN+ QFNCVNWT+SFNT
Sbjct: 61  ITEMKEVLDQMREDSCECKDSIFANAIKTYARVGLLNEAISLFKNIPQFNCVNWTESFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ MVKESKLEAAH LFL S YGWEVKSR++SLNLLMDVLCQ  RSD+AL VFQEM++Q
Sbjct: 121 LLQIMVKESKLEAAHRLFLESSYGWEVKSRVRSLNLLMDVLCQHNRSDVALQVFQEMNYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
           GCYPDR+SY I+M GLC D RLNEATHLLYSMFWRISQKGSGEDIVIYR  L ALCD G 
Sbjct: 181 GCYPDRDSYRIVMMGLCKDGRLNEATHLLYSMFWRISQKGSGEDIVIYRIFLDALCDIGM 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
           ++ A+++L KILRKGLKAPK    R+DL  CN   +IE  K LINEALIRG IPSL+SY+
Sbjct: 241 VEQALEVLGKILRKGLKAPKRCHPRLDLSNCNSDGNIETTKHLINEALIRGAIPSLSSYT 300

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           AMA+D Y EG++ + DKVLDE + +GF PSL+ YEAK+AAL K+G V EA+ V+E EMV+
Sbjct: 301 AMAVDFYAEGKLSQADKVLDETQDRGFRPSLLTYEAKVAALCKEGKVHEAINVLEVEMVE 360

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
           G  VP VR+YNILLKGLCDA NSA AV YLK+M+KQ GCVAN ETY ILV GLC+DG F+
Sbjct: 361 GNCVPNVRLYNILLKGLCDARNSATAVKYLKRMAKQTGCVANKETYCILVHGLCQDGGFI 420

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           EASR+LEEMLI+SYWP V+T+N+LIRGLCSIG+QYEA MWLEEMIS  + P++SVW+SLV
Sbjct: 421 EASRILEEMLIKSYWPPVDTFNMLIRGLCSIGRQYEATMWLEEMISLDEAPELSVWNSLV 480

Query: 481 ASVCCNTADLNVCRKTLEQLSSCS 504
             +C NTAD++ C +T ++LS+CS
Sbjct: 481 TCLCSNTADIDACCETFKRLSNCS 504

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225466731|ref|XP_002268415.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05600-like [Vitis vinifera]

 Score =  721 bits (1861), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 352/502 (70%), Positives = 413/502 (82%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MSV+WPR L PT LSQ+I+ QK+PLTALKIF EAK K+PNYRHNGPVYA+MI +L  S R
Sbjct: 1   MSVKWPRFLIPTQLSQMIRTQKNPLTALKIFNEAKSKFPNYRHNGPVYATMINVLGSSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           I EM+EVIDQMK DSCECKDSVF++ ++TYARAG ++EAVSLFK L QFNCVNWT SFNT
Sbjct: 61  IAEMREVIDQMKQDSCECKDSVFSSVMKTYARAGMVDEAVSLFKTLPQFNCVNWTGSFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ +VKESKLE A  LFL    GWEVKSRI SLNLLMD LCQ  RSDLALHVFQEM +Q
Sbjct: 121 LLRILVKESKLETACRLFLEHSCGWEVKSRIGSLNLLMDALCQINRSDLALHVFQEMRYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
            C PD+ESY ILM+GLC D RLNEATHLLYSMFWRISQKG GEDI  YRTLL ALCD G 
Sbjct: 181 CCSPDKESYRILMRGLCEDGRLNEATHLLYSMFWRISQKGGGEDIAAYRTLLDALCDNGH 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
           +++A++IL K+L+KGLKAPK  R  +DL  C +GEDIE  K LINEALIRGG+PS+ASYS
Sbjct: 241 VEEALEILGKVLKKGLKAPKRCRGHLDLSYCCNGEDIERTKGLINEALIRGGVPSMASYS 300

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           AMAIDLY+E +I E ++VLDEMR +GF PSL +YEAK+AAL + G V+EA++VI+EEMV+
Sbjct: 301 AMAIDLYSERKIGEANQVLDEMRDRGFKPSLSIYEAKIAALCRCGGVEEAVKVIKEEMVE 360

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
            + VPTVR+YNI+LKGLC  G SA AV YL+KM++QVGCVA+ ETY ILVDGLC DGRF+
Sbjct: 361 DSCVPTVRLYNIVLKGLCREGKSAFAVGYLEKMARQVGCVADKETYSILVDGLCCDGRFV 420

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           EAS +LE MLIRS  P VETYN LIRGLC +G+QY+AV+WLEEM+ Q KLP +SVW SLV
Sbjct: 421 EASGILERMLIRSSSPGVETYNTLIRGLCLMGRQYDAVIWLEEMVVQGKLPAVSVWDSLV 480

Query: 481 ASVCCNTADLNVCRKTLEQLSS 502
           ASVC N  +  VC +TLE+L S
Sbjct: 481 ASVCSNMTEAGVCSETLEKLWS 502

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531124|ref|XP_003534128.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05600-like [Glycine max]

 Score =  683 bits (1762), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/502 (64%), Positives = 409/502 (81%), Gaps = 1/502 (0%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MS+RWPR+LTPTYLSQIIK QK+PL AL IF EAK +YPNY HNGPVYA+MI IL  S R
Sbjct: 1   MSIRWPRVLTPTYLSQIIKTQKNPLKALNIFNEAKSRYPNYYHNGPVYATMISILGTSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           + EM++VI+QMK DSCECKDSVF + I+TYA AG ++EA+SL+K++ +FNCVNWT+SFNT
Sbjct: 61  LNEMRDVIEQMKEDSCECKDSVFVSVIKTYANAGLVDEAISLYKSIPRFNCVNWTESFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           +L+ MVKE++LE AH LF+ S  GWEV+S +++LNLLM  LCQ  RSDLAL +FQEMD+Q
Sbjct: 121 MLQIMVKENRLEIAHRLFVESSCGWEVRSLVRALNLLMYALCQKSRSDLALQLFQEMDYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
            CYP+R+SY ILMKGLC DRRL+EATHLLYSMFWRISQKG+GEDIV+YRTLL ALCD GK
Sbjct: 181 SCYPNRDSYAILMKGLCQDRRLHEATHLLYSMFWRISQKGNGEDIVVYRTLLDALCDAGK 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
            ++A +IL KILRKGLKAPK    R+DL   +DG+DIE AK +I+EALI+G +PSLASY+
Sbjct: 241 FEEAEEILGKILRKGLKAPKRCHSRLDLDQLSDGKDIESAKRMIHEALIKGSVPSLASYN 300

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           AMA+DLY+EG+I E DKV+ EM+ +GF P+  ++EAK+AAL K   VDEA++VIEE+MVK
Sbjct: 301 AMAVDLYSEGKIDEADKVIIEMQVRGFKPTHSIFEAKVAALCKVSKVDEAIKVIEEDMVK 360

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
              +PT +VYNILLK LC+ GNS   +  L KMS +VGC  + +TY IL++ LC + R+L
Sbjct: 361 VNCLPTAKVYNILLKNLCNVGNSTAILESLNKMSSKVGCTGDRDTYSILLEMLCGERRYL 420

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           EAS++LE+M I+SYWPC  +YN LIRGLCSIG+QYEAVMWLE+MISQ KLP+ISVW+SL 
Sbjct: 421 EASQLLEKMSIKSYWPCTNSYNSLIRGLCSIGRQYEAVMWLEDMISQGKLPEISVWNSL- 479

Query: 481 ASVCCNTADLNVCRKTLEQLSS 502
           AS+ CN+  + V  +T  +L S
Sbjct: 480 ASLFCNSEKIKVSSETFSRLRS 501

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357488057|ref|XP_003614316.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355515651|gb|AES97274.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  664 bits (1714), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/502 (63%), Positives = 401/502 (79%), Gaps = 1/502 (0%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MS+RWPR+L PTYL+QII+ QK+PL AL+IF EAK KYP Y HNGPVYA+MI IL  S R
Sbjct: 3   MSIRWPRVLNPTYLTQIIRTQKNPLKALEIFNEAKLKYPKYSHNGPVYATMINILGTSGR 62

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           + EM ++I+QMK DSCECKDSVF +AI+TYA+ G ++EA+SL+KN+ QFNCVNWTQSFNT
Sbjct: 63  LKEMSDLIEQMKEDSCECKDSVFVSAIKTYAKEGLVDEAISLYKNIPQFNCVNWTQSFNT 122

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ MV E+KLE AH LF+ S  GWEVKSR+Q+LNLLM  LC+  RSDLAL +FQEMD+Q
Sbjct: 123 LLEIMVNENKLEDAHSLFVESSCGWEVKSRVQALNLLMYALCRKSRSDLALQIFQEMDYQ 182

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
           GCYP+RESY I+MKGLC D+RL+EATHLLYSMFWRIS KG+GEDIVIYRTLL ALCD GK
Sbjct: 183 GCYPNRESYLIVMKGLCQDKRLHEATHLLYSMFWRISLKGNGEDIVIYRTLLDALCDNGK 242

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
             +A++IL KILRKGLKAPK   +R+D+  C DG+D E  K  I+EAL+RG +PS ASY+
Sbjct: 243 FDEAVEILGKILRKGLKAPKRCYNRLDISQCGDGKDAEVTKRWIHEALVRGSVPSTASYT 302

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           +MA+DLY EG+I E DKV+ EM+ + F P   ++EAK+AAL K G VDEA++VIEE+MV+
Sbjct: 303 SMAVDLYEEGKIDEADKVIIEMKDRRFKPKHSIFEAKVAALCKVGKVDEAIKVIEEDMVE 362

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
              +P   VY ILLK L   GNS   +  L KMSK+V C+A+ ETY IL++ LCR+ ++L
Sbjct: 363 VNCLPNATVYTILLKNLGGVGNSTSVLESLNKMSKKVNCMADKETYCILLEMLCRERKYL 422

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           EAS++LE+M I+SYWPC  TYN+LI GLCS+G+QYEAVMWLE+MISQ KLP+ISVW+SL 
Sbjct: 423 EASQLLEQMSIKSYWPCANTYNLLIEGLCSLGRQYEAVMWLEDMISQGKLPEISVWNSLA 482

Query: 481 ASVCCNTADLNVCRKTLEQLSS 502
           +S  CN+  + V  +T +++ S
Sbjct: 483 SSF-CNSGMMKVSTETFDRIRS 503

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445756|ref|XP_004140638.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05600-like [Cucumis sativus] gi|449526108|ref|XP_004170056.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05600-like [Cucumis sativus]

 Score =  664 bits (1713), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/498 (64%), Positives = 397/498 (79%), Gaps = 2/498 (0%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MS+RWPR+LTPT LSQII+KQ +P TA ++FKEAK +YP+YRHNGPVYA+MI IL  S R
Sbjct: 1   MSIRWPRILTPTCLSQIIRKQNNPQTAYQLFKEAKCRYPDYRHNGPVYATMINILGNSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           ++EM+EV+DQM+ DSCECKDSVF+ AI+TYA  G L + +SLFK+  +FNC N TQ+FNT
Sbjct: 61  VSEMREVMDQMRDDSCECKDSVFSFAIKTYASHGLLEDGISLFKSFGRFNCTNRTQTFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ ++KES+L AA  LF    YGW VKSR QSLNLLM  LCQ  +S+LALHVFQEMD+Q
Sbjct: 121 LLEILLKESQLHAACQLFQECSYGWGVKSRTQSLNLLMQSLCQRGQSELALHVFQEMDYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
            CYP+R SY I+MKGLC D RLNEA HLLYSMFWRIS+KG G DIVIYRTLLFALCD G+
Sbjct: 181 SCYPNRLSYLIVMKGLCQDGRLNEAIHLLYSMFWRISRKGGGGDIVIYRTLLFALCDNGE 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPC-NDGEDIEGAKSLINEALIRGGIPSLASY 299
           I+ A++IL KILRKGLKAPK   +RIDL  C N    IE  KSLINEALI+GGIPS  SY
Sbjct: 241 IEQAVEILGKILRKGLKAPKRAHYRIDLDQCRNSNLTIEEIKSLINEALIKGGIPSSDSY 300

Query: 300 SAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMV 359
            AMA+DLYNE +  +GDKV+  M  KGF P  ++YEAK A+L K+G VD+A++VIEE++V
Sbjct: 301 CAMAVDLYNENKTDQGDKVVSHMIAKGFRPPSLIYEAKAASLCKEGKVDDAVKVIEEQIV 360

Query: 360 KGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRF 419
            G  VPT+ +YNI+LKGLCD G S VA+ YLKKM+KQVG VAN ETY  LV GLC + R+
Sbjct: 361 GGC-VPTIALYNIVLKGLCDDGKSTVAMEYLKKMAKQVGLVANKETYSTLVHGLCLENRY 419

Query: 420 LEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSL 479
           +EA +VLEEM+I+S+ PC  T+N LI+GLCS+GK YEAVMWLEEMISQ +LP + VW+SL
Sbjct: 420 IEACKVLEEMVIKSFCPCSNTFNTLIKGLCSVGKHYEAVMWLEEMISQGQLPHVCVWNSL 479

Query: 480 VASVCCNTADLNVCRKTL 497
           V+S+CC+ A +++C + L
Sbjct: 480 VSSLCCDVAGIDMCSRVL 497

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843350|ref|XP_002889556.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297335398|gb|EFH65815.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  657 bits (1695), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/491 (64%), Positives = 401/491 (81%), Gaps = 1/491 (0%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MSVRWPR+LTP+ LSQI+KKQK+P+TALK+F+EAK ++P+Y HNG VYA+MI IL  SNR
Sbjct: 1   MSVRWPRVLTPSLLSQILKKQKNPVTALKLFEEAKVRFPSYGHNGTVYATMIDILGNSNR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           + EMK VI++MKGDSCECKDSVFA+AIRT++RAG+L++A+SLFK+L +FNCVNWT SF+T
Sbjct: 61  VLEMKYVIERMKGDSCECKDSVFASAIRTFSRAGRLDDAISLFKSLHEFNCVNWTLSFDT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+EMVKES+LEAA  +F + CYGWEV SRI +LNLLM VLCQ  RSDLA  VFQEM++Q
Sbjct: 121 LLQEMVKESELEAACHIFRKYCYGWEVNSRITALNLLMKVLCQVNRSDLASQVFQEMNYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
           GCYPDR+S+ ILMKG C + +L+EATHLLYSMFWRISQKGSGEDIV+Y+ LL ALCD G+
Sbjct: 181 GCYPDRDSFRILMKGFCLEGKLDEATHLLYSMFWRISQKGSGEDIVVYKILLDALCDAGE 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPC-NDGEDIEGAKSLINEALIRGGIPSLASY 299
           +  A++IL KILRKGLKAPK   H+I+     ++ E I+  K L+ E LIRG IPSL SY
Sbjct: 241 VDQAIEILGKILRKGLKAPKRCYHQIEAGHWESNSEGIKRVKRLLTETLIRGAIPSLDSY 300

Query: 300 SAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMV 359
           SAMA DL+ EG++VEG++VL  MR KGF P+  +Y AK+ AL K G ++EA+ VI +EM+
Sbjct: 301 SAMATDLFEEGKLVEGEEVLLAMRRKGFEPTPFIYGAKVKALCKAGKLEEAVSVINKEMM 360

Query: 360 KGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRF 419
           +G  +PTV VYN+L+KGLCD G S  AV YLKKMSKQV CVAN ETY  L+DGLCRD +F
Sbjct: 361 EGHCLPTVGVYNVLIKGLCDEGKSMEAVGYLKKMSKQVSCVANEETYQTLMDGLCRDSQF 420

Query: 420 LEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSL 479
           LEAS+V+EEMLI+S++P VETY+V+I+GLC + ++YEAVMWLEEM+SQ  +P+ SVW +L
Sbjct: 421 LEASQVMEEMLIKSHFPGVETYHVMIKGLCDMDRRYEAVMWLEEMVSQDMVPESSVWKAL 480

Query: 480 VASVCCNTADL 490
             SVC    D+
Sbjct: 481 AESVCFCAIDV 491

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15220591|ref|NP_172051.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|334182311|ref|NP_001184914.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75213450|sp|Q9SYK1.1|PPR11_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g05600 gi|4836924|gb|AAD30626.1|AC007153_18 Hypothetical protein [Arabidopsis thaliana] gi|53828567|gb|AAU94393.1| At1g05600 [Arabidopsis thaliana] gi|56790224|gb|AAW30029.1| At1g05600 [Arabidopsis thaliana] gi|332189741|gb|AEE27862.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|332189742|gb|AEE27863.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  654 bits (1687), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/489 (64%), Positives = 396/489 (80%), Gaps = 1/489 (0%)

Query: 3   VRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRIT 62
           VRWPR+LTP+ LSQI+KKQK+P+TALK+F+EAKE++P+Y HNG VYA+MI IL +SNR+ 
Sbjct: 4   VRWPRVLTPSLLSQILKKQKNPVTALKLFEEAKERFPSYGHNGSVYATMIDILGKSNRVL 63

Query: 63  EMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL 122
           EMK VI++MK DSCECKDSVFA+ IRT++RAG+L +A+SLFK+L +FNCVNW+ SF+TLL
Sbjct: 64  EMKYVIERMKEDSCECKDSVFASVIRTFSRAGRLEDAISLFKSLHEFNCVNWSLSFDTLL 123

Query: 123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC 182
           +EMVKES+LEAA  +F + CYGWEV SRI +LNLLM VLCQ  RSDLA  VFQEM++QGC
Sbjct: 124 QEMVKESELEAACHIFRKYCYGWEVNSRITALNLLMKVLCQVNRSDLASQVFQEMNYQGC 183

Query: 183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ 242
           YPDR+SY ILMKG C + +L EATHLLYSMFWRISQKGSGEDIV+YR LL ALCD G++ 
Sbjct: 184 YPDRDSYRILMKGFCLEGKLEEATHLLYSMFWRISQKGSGEDIVVYRILLDALCDAGEVD 243

Query: 243 DAMQILEKILRKGLKAPKSRRHRIDLCPC-NDGEDIEGAKSLINEALIRGGIPSLASYSA 301
           DA++IL KILRKGLKAPK   H I+     +  E IE  K L+ E LIRG IP L SYSA
Sbjct: 244 DAIEILGKILRKGLKAPKRCYHHIEAGHWESSSEGIERVKRLLTETLIRGAIPCLDSYSA 303

Query: 302 MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG 361
           MA DL+ EG++VEG++VL  MR+KGF P+  +Y AK+ AL + G + EA+ VI +EM++G
Sbjct: 304 MATDLFEEGKLVEGEEVLLAMRSKGFEPTPFIYGAKVKALCRAGKLKEAVSVINKEMMQG 363

Query: 362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE 421
             +PTV VYN+L+KGLCD G S  AV YLKKMSKQV CVAN ETY  LVDGLCRDG+FLE
Sbjct: 364 HCLPTVGVYNVLIKGLCDDGKSMEAVGYLKKMSKQVSCVANEETYQTLVDGLCRDGQFLE 423

Query: 422 ASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA 481
           AS+V+EEMLI+S++P VETY+++I+GLC + ++YEAVMWLEEM+SQ  +P+ SVW +L  
Sbjct: 424 ASQVMEEMLIKSHFPGVETYHMMIKGLCDMDRRYEAVMWLEEMVSQDMVPESSVWKALAE 483

Query: 482 SVCCNTADL 490
           SVC    D+
Sbjct: 484 SVCFCAIDV 492

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499195|ref|XP_003619886.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355494901|gb|AES76104.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  624 bits (1608), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 303/501 (60%), Positives = 385/501 (76%), Gaps = 19/501 (3%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MS+RWPR+L PTYL+QII+ QK+PL AL+IF EAK KYPNY HNGPVYA+MI IL  S R
Sbjct: 1   MSIRWPRVLNPTYLTQIIRTQKNPLKALEIFNEAKSKYPNYSHNGPVYATMINILGTSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           + EM ++I+QMK DS                    ++EA+SL+KN+ QFNCVNWTQSFNT
Sbjct: 61  LKEMSDLIEQMKEDS------------------WLVDEAISLYKNIPQFNCVNWTQSFNT 102

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LLK MV E+KLE AH LF+ S  GWEVKSR+Q+LNLLM  LC+  RSDLAL +FQEMD+Q
Sbjct: 103 LLKIMVNENKLEDAHSLFVESSCGWEVKSRVQALNLLMYALCRKSRSDLALQIFQEMDYQ 162

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
            CYP+RESY I+MKGLC D+RL+EATHLLYSMFWRIS KG+GEDIVIYRTLL ALCD GK
Sbjct: 163 DCYPNRESYLIVMKGLCQDKRLHEATHLLYSMFWRISLKGNGEDIVIYRTLLDALCDNGK 222

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
             +A++IL KILRKGLKAPK   +R+D+  C DG+D+E  K  I+EAL+RG +PS ASY+
Sbjct: 223 FDEAVEILGKILRKGLKAPKRCYNRLDITQCGDGKDVEVTKRWIHEALVRGSVPSTASYT 282

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
           +MA+DLY EG+I E DKV+ EM+ + F P   ++EAK+AAL K G VDEA++VIEE+MV+
Sbjct: 283 SMAVDLYEEGKIDEADKVIIEMKDRRFRPKHSIFEAKVAALCKVGKVDEAIKVIEEDMVE 342

Query: 361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
              +P  RVY ILLK +   GNS   +  L KMSK+V C+A+ ETY IL++ LCR+G++L
Sbjct: 343 VNCLPNARVYTILLKNIRSVGNSTSVLESLNKMSKKVNCMADKETYCILLEMLCREGKYL 402

Query: 421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
           +AS++LE+M I+SYWP   +YN+LI GLCS+G+QYEAVMWLE+MISQ KLP+ISVW+SL 
Sbjct: 403 QASQLLEQMSIKSYWPSANSYNLLIEGLCSLGRQYEAVMWLEDMISQGKLPEISVWNSLA 462

Query: 481 ASVCCNTADLNVCRKTLEQLS 501
           +S  CN+  + V  +T  Q++
Sbjct: 463 SSF-CNSGMMKVSAETFNQMN 482

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089005|emb|CBI38708.3| unnamed protein product [Vitis vinifera]

 Score =  546 bits (1408), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 293/507 (57%), Positives = 348/507 (68%), Gaps = 47/507 (9%)

Query: 1   MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR 60
           MSV+WPR L PT LSQ+I+ QK+PLTALKIF EAK K+PNYRHNGPVYA+MI +L  S R
Sbjct: 1   MSVKWPRFLIPTQLSQMIRTQKNPLTALKIFNEAKSKFPNYRHNGPVYATMINVLGSSGR 60

Query: 61  ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT 120
           I EM+EVIDQMK DSCECKDSVF++ ++TYARAG ++EAVSLFK L QFNCVNWT SFNT
Sbjct: 61  IAEMREVIDQMKQDSCECKDSVFSSVMKTYARAGMVDEAVSLFKTLPQFNCVNWTGSFNT 120

Query: 121 LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ 180
           LL+ +VKESKLE A  LFL    GWEVKSRI SLNLLMD LCQ  RSDLALHVFQEM +Q
Sbjct: 121 LLRILVKESKLETACRLFLEHSCGWEVKSRIGSLNLLMDALCQINRSDLALHVFQEMRYQ 180

Query: 181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK 240
            C PD+ESY ILM+GLC D RLNEATHLLYSMFWRISQKG GEDI  YRTLL ALCD G 
Sbjct: 181 CCSPDKESYRILMRGLCEDGRLNEATHLLYSMFWRISQKGGGEDIAAYRTLLDALCDNGH 240

Query: 241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS 300
           +++A++IL K+L+KGLKAPK  R  +DL  C +GEDIE  K LINEALIRGG+PS+ASYS
Sbjct: 241 VEEALEILGKVLKKGLKAPKRCRGHLDLSYCCNGEDIERTKGLINEALIRGGVPSMASYS 300

Query: 301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAAL--FKDGMVDEALEVIEEEM 358
           AMAIDLY+E +I E ++VLDEMR +GF PSL +YEAK+AAL  +K       LE +  ++
Sbjct: 301 AMAIDLYSERKIGEANQVLDEMRDRGFKPSLSIYEAKIAALCRWKSAFAVGYLEKMARQV 360

Query: 359 VKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKM---SKQVGCVANGETYGILVDGLCR 415
                V     Y+IL+ GLC  G    A   L++M   S   G     ETY  L+ GLC 
Sbjct: 361 ---GCVADKETYSILVDGLCCDGRFVEASGILERMLIRSSSPGV----ETYNTLIRGLCL 413

Query: 416 DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISV 475
            GR  +A   LEEM+++   P V  ++                                 
Sbjct: 414 MGRQYDAVIWLEEMVVQGKLPAVSVWD--------------------------------- 440

Query: 476 WSSLVASVCCNTADLNVCRKTLEQLSS 502
             SLVASVC N  +  VC +TLE+L S
Sbjct: 441 --SLVASVCSNMTEAGVCSETLEKLWS 465

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	504
TAIR|locus:2031998	504	EMB3101 "AT1G05600" [Arabidops	0.968	0.968	0.648	6.4e-170
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.916	0.605	0.263	3.4e-45
TAIR|locus:2119747	660	EMB1025 "embryo defective 1025	0.926	0.707	0.261	9.9e-43
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.924	0.618	0.253	2.3e-41
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.865	0.923	0.257	1.2e-40
TAIR|locus:2171352	535	AT5G16420 "AT5G16420" [Arabido	0.914	0.861	0.247	4.2e-40
TAIR|locus:2009787	806	AT1G30290 "AT1G30290" [Arabido	0.924	0.578	0.269	1e-39
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.946	0.653	0.250	2.4e-38
TAIR|locus:2009155	500	AT1G06580 [Arabidopsis thalian	0.829	0.836	0.272	1e-36
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.799	0.539	0.259	1.1e-36

TAIR|locus:2031998 EMB3101 "AT1G05600" [Arabidopsis thaliana (taxid:3702)]

 Score = 1652 (586.6 bits), Expect = 6.4e-170, P = 6.4e-170
 Identities = 317/489 (64%), Positives = 396/489 (80%)

Query:     3 VRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRIT 62
             VRWPR+LTP+ LSQI+KKQK+P+TALK+F+EAKE++P+Y HNG VYA+MI IL +SNR+ 
Sbjct:     4 VRWPRVLTPSLLSQILKKQKNPVTALKLFEEAKERFPSYGHNGSVYATMIDILGKSNRVL 63

Query:    63 EMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL 122
             EMK VI++MK DSCECKDSVFA+ IRT++RAG+L +A+SLFK+L +FNCVNW+ SF+TLL
Sbjct:    64 EMKYVIERMKEDSCECKDSVFASVIRTFSRAGRLEDAISLFKSLHEFNCVNWSLSFDTLL 123

Query:   123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC 182
             +EMVKES+LEAA  +F + CYGWEV SRI +LNLLM VLCQ  RSDLA  VFQEM++QGC
Sbjct:   124 QEMVKESELEAACHIFRKYCYGWEVNSRITALNLLMKVLCQVNRSDLASQVFQEMNYQGC 183

Query:   183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ 242
             YPDR+SY ILMKG C + +L EATHLLYSMFWRISQKGSGEDIV+YR LL ALCD G++ 
Sbjct:   184 YPDRDSYRILMKGFCLEGKLEEATHLLYSMFWRISQKGSGEDIVVYRILLDALCDAGEVD 243

Query:   243 DAMQILEKILRKGLKAPKSRRHRIDLCPC-NDGEDIEGAKSLINEALIRGGIPSLASYSA 301
             DA++IL KILRKGLKAPK   H I+     +  E IE  K L+ E LIRG IP L SYSA
Sbjct:   244 DAIEILGKILRKGLKAPKRCYHHIEAGHWESSSEGIERVKRLLTETLIRGAIPCLDSYSA 303

Query:   302 MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG 361
             MA DL+ EG++VEG++VL  MR+KGF P+  +Y AK+ AL + G + EA+ VI +EM++G
Sbjct:   304 MATDLFEEGKLVEGEEVLLAMRSKGFEPTPFIYGAKVKALCRAGKLKEAVSVINKEMMQG 363

Query:   362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE 421
               +PTV VYN+L+KGLCD G S  AV YLKKMSKQV CVAN ETY  LVDGLCRDG+FLE
Sbjct:   364 HCLPTVGVYNVLIKGLCDDGKSMEAVGYLKKMSKQVSCVANEETYQTLVDGLCRDGQFLE 423

Query:   422 ASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA 481
             AS+V+EEMLI+S++P VETY+++I+GLC + ++YEAVMWLEEM+SQ  +P+ SVW +L  
Sbjct:   424 ASQVMEEMLIKSHFPGVETYHMMIKGLCDMDRRYEAVMWLEEMVSQDMVPESSVWKALAE 483

Query:   482 SVCCNTADL 490
             SVC    D+
Sbjct:   484 SVCFCAIDV 492

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 480 (174.0 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 126/479 (26%), Positives = 235/479 (49%)

Query:     6 PRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMK 65
             P LL P +++ +IK QK P+ AL++F   +++   ++H    Y S+I  L    +   M+
Sbjct:     3 PPLL-PKHVTAVIKCQKDPMKALEMFNSMRKEV-GFKHTLSTYRSVIEKLGYYGKFEAME 60

Query:    66 EV-IDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE 124
             EV +D  +       + V+  A++ Y R G++ EAV++F+ +  ++C     S+N ++  
Sbjct:    61 EVLVDMRENVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSV 120

Query:   125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP 184
             +V     + AH +++R      +   + S  + M   C+  R   AL +   M  QGC  
Sbjct:   121 LVDSGYFDQAHKVYMRM-RDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEM 179

Query:   185 DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDA 244
             +  +Y  ++ G   +    E     Y +F ++   G    +  +  LL  LC +G +++ 
Sbjct:   180 NVVAYCTVVGGFYEENFKAEG----YELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKEC 235

Query:   245 MQILEKILRKGLKAPKSRRHRIDLCP-CNDGEDIEGAKSLINEALIRGGIPSLASYSAMA 303
              ++L+K++++G+  P    + + +   C  GE ++GA  ++   + +G  P + +Y+ + 
Sbjct:   236 EKLLDKVIKRGV-LPNLFTYNLFIQGLCQRGE-LDGAVRMVGCLIEQGPKPDVITYNNLI 293

Query:   304 IDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF 363
               L    +  E +  L +M  +G  P    Y   +A   K GMV  A  ++ + +  G F
Sbjct:   294 YGLCKNSKFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNG-F 352

Query:   364 VPTVRVYNILLKGLCDAG--NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE 421
             VP    Y  L+ GLC  G  N A+A ++ + + K  G   N   Y  L+ GL   G  LE
Sbjct:   353 VPDQFTYRSLIDGLCHEGETNRALA-LFNEALGK--GIKPNVILYNTLIKGLSNQGMILE 409

Query:   422 ASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
             A+++  EM  +   P V+T+N+L+ GLC +G   +A   ++ MIS+   PDI  ++ L+
Sbjct:   410 AAQLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILI 468

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 453 (164.5 bits), Expect = 9.9e-43, P = 9.9e-43
 Identities = 126/481 (26%), Positives = 232/481 (48%)

Query:     9 LTPTYLSQIIKKQ-KSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEV 67
             ++P    ++++   ++P++  K+FK A  K  +++      +SMI   + S     ++++
Sbjct:    42 VSPNPSMEVVENPLEAPISE-KMFKSAP-KMGSFKLGDSTLSSMIESYANSGDFDSVEKL 99

Query:    68 IDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNL-SQFNCVNWTQSFNTLLKEMV 126
             + +++ ++    +  F    R Y +A   ++AV LF  +  +F C    +SFN++L  ++
Sbjct:   100 LSRIRLENRVIIERSFIVVFRAYGKAHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVII 159

Query:   127 KESKLEAAHILF---LRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCY 183
              E         +   + S     +     S NL++  LC+ R  D A+ VF+ M  + C 
Sbjct:   160 NEGLYHRGLEFYDYVVNSNMNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCL 219

Query:   184 PDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD 243
             PD  +Y  LM GLC + R++EA  LL  M      +G     VIY  L+  LC +G +  
Sbjct:   220 PDGYTYCTLMDGLCKEERIDEAVLLLDEM----QSEGCSPSPVIYNVLIDGLCKKGDLTR 275

Query:   244 AMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMA 303
               ++++ +  KG    +   + +    C  G+ ++ A SL+   +    IP+  +Y  + 
Sbjct:   276 VTKLVDNMFLKGCVPNEVTYNTLIHGLCLKGK-LDKAVSLLERMVSSKCIPNDVTYGTLI 334

Query:   304 IDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF 363
               L  + R  +  ++L  M  +G+  +  +Y   ++ LFK+G  +EA+ +  +   KG  
Sbjct:   335 NGLVKQRRATDAVRLLSSMEERGYHLNQHIYSVLISGLFKEGKAEEAMSLWRKMAEKGC- 393

Query:   364 VPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEAS 423
              P + VY++L+ GLC  G    A   L +M    GC+ N  TY  L+ G  + G   EA 
Sbjct:   394 KPNIVVYSVLVDGLCREGKPNEAKEILNRMIAS-GCLPNAYTYSSLMKGFFKTGLCEEAV 452

Query:   424 RVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASV 483
             +V +EM           Y+VLI GLC +G+  EA+M   +M++    PD   +SS++  +
Sbjct:   453 QVWKEMDKTGCSRNKFCYSVLIDGLCGVGRVKEAMMVWSKMLTIGIKPDTVAYSSIIKGL 512

Query:   484 C 484
             C
Sbjct:   513 C 513

GO:0005739 "mitochondrion" evidence=ISM

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

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

 Score = 445 (161.7 bits), Expect = 2.3e-41, P = 2.3e-41
 Identities = 121/477 (25%), Positives = 226/477 (47%)

Query:    10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVID 69
             T   L   ++ Q     AL++F  A +K PN+     +Y  ++  L  S    +MK++++
Sbjct:    49 TDVKLLDSLRSQPDDSAALRLFNLASKK-PNFSPEPALYEEILLRLGRSGSFDDMKKILE 107

Query:    70 QMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFK-NLSQFNCVNWTQSFNTLLKEMVKE 128
              MK   CE   S F   I +YA+    +E +S+    + +F     T  +N +L  +V  
Sbjct:   108 DMKSSRCEMGTSTFLILIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYNRMLNLLVDG 167

Query:   129 SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRES 188
             + L+   I   +    W +K  + + N+L+  LC+  +   A+ + ++M   G  PD ++
Sbjct:   168 NSLKLVEISHAKMSV-WGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKT 226

Query:   189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQIL 248
             +  +M+G   +  L+ A  +   M     + G     V    ++   C +G+++DA+  +
Sbjct:   227 FTTVMQGYIEEGDLDGALRIREQMV----EFGCSWSNVSVNVIVHGFCKEGRVEDALNFI 282

Query:   249 EKILRK-GLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLY 307
             +++  + G    +   + +    C  G  ++ A  +++  L  G  P + +Y+++   L 
Sbjct:   283 QEMSNQDGFFPDQYTFNTLVNGLCKAGH-VKHAIEIMDVMLQEGYDPDVYTYNSVISGLC 341

Query:   308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTV 367
               G + E  +VLD+M T+   P+ V Y   ++ L K+  V+EA E+      KG  +P V
Sbjct:   342 KLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKG-ILPDV 400

Query:   368 RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLE 427
               +N L++GLC   N  VA+   ++M  + GC  +  TY +L+D LC  G+  EA  +L+
Sbjct:   401 CTFNSLIQGLCLTRNHRVAMELFEEMRSK-GCEPDEFTYNMLIDSLCSKGKLDEALNMLK 459

Query:   428 EMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
             +M +      V TYN LI G C   K  EA    +EM       +   +++L+  +C
Sbjct:   460 QMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLC 516

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

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

GO:0048481 "ovule development" evidence=RCA

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

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 117/454 (25%), Positives = 221/454 (48%)

Query:     1 MSVRWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPN-YRHNGPVYASMIGILSESN 59
             M  +W + +TP+ + ++++ +K    ++ +F  A  +Y N Y H+   +  M+  L  +N
Sbjct:     6 MMFKWSKNITPSQVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSAN 65

Query:    60 RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFN 119
             +    +++I +MK ++C   + +  +  R Y R  +  +++ +F  +  F+C    +++ 
Sbjct:    66 KFKAAEDLIVRMKIENCVVSEDILLSICRGYGRVHRPFDSLRVFHKMKDFDCDPSQKAYV 125

Query:   120 TLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS-DLALHVFQEMD 178
             T+L  +V+E++L  A   F ++     +   + SLN+L+  LC+   + D  L +F EM 
Sbjct:   126 TVLAILVEENQLNLA-FKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMP 184

Query:   179 FQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ 238
              +GC PD  +Y  L+ GLC   R++EA  L    F  + +K     +V Y +L+  LC  
Sbjct:   185 KRGCDPDSYTYGTLISGLCRFGRIDEAKKL----FTEMVEKDCAPTVVTYTSLINGLCGS 240

Query:   239 GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLAS 298
               + +AM+ LE++  KG++        +    C DG  ++ A  L    + RG  P++ +
Sbjct:   241 KNVDEAMRYLEEMKSKGIEPNVFTYSSLMDGLCKDGRSLQ-AMELFEMMMARGCRPNMVT 299

Query:   299 YSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEM 358
             Y+ +   L  E +I E  ++LD M  +G  P   +Y   ++         EA   ++E M
Sbjct:   300 YTTLITGLCKEQKIQEAVELLDRMNLQGLKPDAGLYGKVISGFCAISKFREAANFLDE-M 358

Query:   359 VKGTFVPTVRVYNI-------LLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVD 411
             + G   P    +NI       +++GLC    S    +YL   S+  G     ET   LV 
Sbjct:   359 ILGGITPNRLTWNIHVKTSNEVVRGLCANYPSRAFTLYLSMRSR--GISVEVETLESLVK 416

Query:   412 GLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLI 445
              LC+ G F +A ++++E++     P   T+ +LI
Sbjct:   417 CLCKKGEFQKAVQLVDEIVTDGCIPSKGTWKLLI 450

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2171352 AT5G16420 "AT5G16420" [Arabidopsis thaliana (taxid:3702)]

 Score = 427 (155.4 bits), Expect = 4.2e-40, P = 4.2e-40
 Identities = 118/476 (24%), Positives = 223/476 (46%)

Query:     5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEM 64
             WP+ L P  L  +I +Q++   AL+IF  A + +P + HN   Y S++  LS +     +
Sbjct:    43 WPQRLFPKRLVSMITQQQNIDLALQIFLYAGKSHPGFTHNYDTYHSILFKLSRARAFDPV 102

Query:    65 KEVIDQMKGD--SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL 122
             + ++  ++      +C +++F   +R Y  AG+   ++ +F  +  F      +S NTLL
Sbjct:   103 ESLMADLRNSYPPIKCGENLFIDLLRNYGLAGRYESSMRIFLRIPDFGVKRSVRSLNTLL 162

Query:   123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC 182
               +++  + +  H +F  S   + +   I + NLL+  LC+    + A  V  E+   G 
Sbjct:   163 NVLIQNQRFDLVHAMFKNSKESFGITPNIFTCNLLVKALCKKNDIESAYKVLDEIPSMGL 222

Query:   183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ 242
              P+  +Y  ++ G      +  A  +L  M      +G   D   Y  L+   C  G+  
Sbjct:   223 VPNLVTYTTILGGYVARGDMESAKRVLEEML----DRGWYPDATTYTVLMDGYCKLGRFS 278

Query:   243 DAMQILEKILRKGLKAPKSRRHRIDL-CPCNDGEDIEGAKSLINEALIRGGIPSLASYSA 301
             +A  +++ + +  ++ P    + + +   C + +  E A+++ +E L R  +P  +S   
Sbjct:   279 EAATVMDDMEKNEIE-PNEVTYGVMIRALCKEKKSGE-ARNMFDEMLERSFMPD-SSLCC 335

Query:   302 MAID-LYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK 360
               ID L  + ++ E   +  +M      P   +    +  L K+G V EA ++ +E   K
Sbjct:   336 KVIDALCEDHKVDEACGLWRKMLKNNCMPDNALLSTLIHWLCKEGRVTEARKLFDE-FEK 394

Query:   361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL 420
             G+ +P++  YN L+ G+C+ G    A      M ++  C  N  TY +L++GL ++G   
Sbjct:   395 GS-IPSLLTYNTLIAGMCEKGELTEAGRLWDDMYERK-CKPNAFTYNVLIEGLSKNGNVK 452

Query:   421 EASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVW 476
             E  RVLEEML    +P   T+ +L  GL  +GK+ +A+  +   +   K+ D   W
Sbjct:   453 EGVRVLEEMLEIGCFPNKTTFLILFEGLQKLGKEEDAMKIVSMAVMNGKV-DKESW 507

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 431 (156.8 bits), Expect = 1.0e-39, P = 1.0e-39
 Identities = 128/475 (26%), Positives = 220/475 (46%)

Query:     7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKE 66
             R L P+ +  +++ Q     ALK F  A  ++  YRH+  VY SM+ +LS++      + 
Sbjct:   170 RSLKPSQVCAVLRSQDDERVALKFFYWADRQW-RYRHDPMVYYSMLEVLSKTKLCQGSRR 228

Query:    67 VIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV 126
             V+  MK          F+  + +Y+RAGQL +A+ +   + +          NT +   V
Sbjct:   229 VLVLMKRRGIYRTPEAFSRVMVSYSRAGQLRDALKVLTLMQRAGVEPNLLICNTTIDVFV 288

Query:   127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR 186
             + ++LE A + FL       +   + + N ++   C   R + A+ + ++M  +GC PD+
Sbjct:   289 RANRLEKA-LRFLERMQVVGIVPNVVTYNCMIRGYCDLHRVEEAIELLEDMHSKGCLPDK 347

Query:   187 ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ 246
              SY+ +M  LC ++R+ E   L+  M     + G   D V Y TL+  L       +A+ 
Sbjct:   348 VSYYTIMGYLCKEKRIVEVRDLMKKM---AKEHGLVPDQVTYNTLIHMLTKHDHADEALW 404

Query:   247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP-SLASYSAMAID 305
              L+    KG +  K     I    C +G   E AK LINE L +G  P  + +Y+A+   
Sbjct:   405 FLKDAQEKGFRIDKLGYSAIVHALCKEGRMSE-AKDLINEMLSKGHCPPDVVTYTAVVNG 463

Query:   306 LYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP 365
                 G + +  K+L  M T G  P+ V Y A L  + + G   EA E++     +  + P
Sbjct:   464 FCRLGEVDKAKKLLQVMHTHGHKPNTVSYTALLNGMCRTGKSLEAREMMNMSE-EHWWSP 522

Query:   366 TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRV 425
                 Y++++ GL   G  + A   +++M  + G         +L+  LCRDGR  EA + 
Sbjct:   523 NSITYSVIMHGLRREGKLSEACDVVREMVLK-GFFPGPVEINLLLQSLCRDGRTHEARKF 581

Query:   426 LEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV 480
             +EE L +     V  +  +I G C   +   A+  L++M    K  D+  +++LV
Sbjct:   582 MEECLNKGCAINVVNFTTVIHGFCQNDELDAALSVLDDMYLINKHADVFTYTTLV 636

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 417 (151.9 bits), Expect = 2.4e-38, P = 2.4e-38
 Identities = 124/495 (25%), Positives = 227/495 (45%)

Query:     9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVI 68
             +TP  L ++++   +  T++++F     +   YRH+  VY  +IG L  +     +  ++
Sbjct:    76 ITPFQLYKLLELPLNVSTSMELFSWTGSQN-GYRHSFDVYQVLIGKLGANGEFKTIDRLL 134

Query:    69 DQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ-FNCVNWTQSFNTLLKEMVK 127
              QMK +    K+S+F + +R Y +AG   +   L   +   ++C    +S+N +L+ +V 
Sbjct:   135 IQMKDEGIVFKESLFISIMRDYDKAGFPGQTTRLMLEMRNVYSCEPTFKSYNVVLEILVS 194

Query:   128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE 187
              +  + A  +F       ++   + +  ++M   C     D AL + ++M   GC P+  
Sbjct:   195 GNCHKVAANVFY-DMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRDMTKHGCVPNSV 253

Query:   188 SYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQI 247
              Y  L+  L    R+NEA  LL  MF      G   D   +  ++  LC   +I +A ++
Sbjct:   254 IYQTLIHSLSKCNRVNEALQLLEEMFLM----GCVPDAETFNDVILGLCKFDRINEAAKM 309

Query:   248 LEKILRKGLKAPKSRRHRIDLCP-CNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDL 306
             + ++L +G  AP    +   +   C  G  ++ AK L      R   P +  ++ +    
Sbjct:   310 VNRMLIRGF-APDDITYGYLMNGLCKIGR-VDAAKDLF----YRIPKPEIVIFNTLIHGF 363

Query:   307 YNEGRIVEGDKVLDEMRTK-GFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP 365
                GR+ +   VL +M T  G  P +  Y + +   +K+G+V  ALEV+ +   KG   P
Sbjct:   364 VTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGC-KP 422

Query:   366 TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRV 425
              V  Y IL+ G C  G    A   L +MS   G   N   +  L+   C++ R  EA  +
Sbjct:   423 NVYSYTILVDGFCKLGKIDEAYNVLNEMSAD-GLKPNTVGFNCLISAFCKEHRIPEAVEI 481

Query:   426 LEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCC 485
               EM  +   P V T+N LI GLC + +   A+  L +MIS+  + +   +++L+ +   
Sbjct:   482 FREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLI-NAFL 540

Query:   486 NTADLNVCRKTLEQL 500
                ++   RK + ++
Sbjct:   541 RRGEIKEARKLVNEM 555

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2009155 AT1G06580 [Arabidopsis thaliana (taxid:3702)]

 Score = 395 (144.1 bits), Expect = 1.0e-36, P = 1.0e-36
 Identities = 118/433 (27%), Positives = 215/433 (49%)

Query:    54 ILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVN 113
             +L + N +T +   I   +  S     S +   +R+   + + N+A++LF ++++ + + 
Sbjct:    21 LLEKGNLVTALSLRICNSRAFSGR---SDYRERLRSGLHSIKFNDALTLFCDMAESHPLP 77

Query:   114 WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV 173
                 F+ LL  + K +K EA   LF R      +   + S   L+D  C+C R  LAL  
Sbjct:    78 SIVDFSRLLIAIAKLNKYEAVISLF-RHLEMLGISHDLYSFTTLIDCFCRCARLSLALSC 136

Query:   174 FQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLF 233
               +M   G  P   ++  L+ G C+  R  EA  L+     +I   G   ++VIY T++ 
Sbjct:   137 LGKMMKLGFEPSIVTFGSLVNGFCHVNRFYEAMSLVD----QIVGLGYEPNVVIYNTIID 192

Query:   234 ALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGI 293
             +LC++G++  A+ +L+ + + G++      + +     + G    G  + I   ++R GI
Sbjct:   193 SLCEKGQVNTALDVLKHMKKMGIRPDVVTYNSLITRLFHSGT--WGVSARILSDMMRMGI 250

Query:   294 -PSLASYSAMAIDLYN-EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEAL 351
              P + ++SA+ ID+Y  EG+++E  K  +EM  +   P++V Y + +  L   G++DEA 
Sbjct:   251 SPDVITFSAL-IDVYGKEGQLLEAKKQYNEMIQRSVNPNIVTYNSLINGLCIHGLLDEAK 309

Query:   352 EVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVD 411
             +V+   + KG F P    YN L+ G C A      +  L  MS+  G   +  TY  L  
Sbjct:   310 KVLNVLVSKG-FFPNAVTYNTLINGYCKAKRVDDGMKILCVMSRD-GVDGDTFTYNTLYQ 367

Query:   412 GLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLP 471
             G C+ G+F  A +VL  M+     P + T+N+L+ GLC  GK  +A++ LE++     + 
Sbjct:   368 GYCQAGKFSAAEKVLGRMVSCGVHPDMYTFNILLDGLCDHGKIGKALVRLEDLQKSKTVV 427

Query:   472 DISVWSSLVASVC 484
              I  ++ ++  +C
Sbjct:   428 GIITYNIIIKGLC 440

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 402 (146.6 bits), Expect = 1.1e-36, P = 1.1e-36
 Identities = 107/412 (25%), Positives = 200/412 (48%)

Query:    74 DSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK-LE 132
             D C    SVF   +++Y+R   +++A+S+         +    S+N +L   ++  + + 
Sbjct:   128 DLCYSTSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNIS 187

Query:   133 AAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHIL 192
              A  +F +     +V   + + N+L+   C     D+AL +F +M+ +GC P+  +Y+ L
Sbjct:   188 FAENVF-KEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTL 246

Query:   193 MKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKIL 252
             + G C  R++++   LL SM    + KG   +++ Y  ++  LC +G++++   +L ++ 
Sbjct:   247 IDGYCKLRKIDDGFKLLRSM----ALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMN 302

Query:   253 RKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRI 312
             R+G    +   + +    C +G +   A  +  E L  G  PS+ +Y+++   +   G +
Sbjct:   303 RRGYSLDEVTYNTLIKGYCKEG-NFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNM 361

Query:   313 VEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNI 372
                 + LD+MR +G  P+   Y   +    + G ++EA  V+ E    G F P+V  YN 
Sbjct:   362 NRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNG-FSPSVVTYNA 420

Query:   373 LLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIR 432
             L+ G C  G    A+  L+ M K+ G   +  +Y  ++ G CR     EA RV  EM+ +
Sbjct:   421 LINGHCVTGKMEDAIAVLEDM-KEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEK 479

Query:   433 SYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC 484
                P   TY+ LI+G C   +  EA    EEM+     PD   +++L+ + C
Sbjct:   480 GIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYC 531

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9SYK1	PPR11_ARATH	No assigned EC number	0.6482	0.9682	0.9682	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00021665 hypothetical protein (503 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	504
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.004

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

 Score = 50.5 bits (122), Expect = 1e-08
 Identities = 21/45 (46%), Positives = 28/45 (62%)

Query: 405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLC 449
           TY  L+DG C+ G+  EA ++  EM  R   P V TY++LI GLC
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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 = 50.5 bits (122), Expect = 2e-08
 Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 365 PTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR 415
           P V  YN L+ G C  G    A+    +M K+ G   N  TY IL+DGLC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILIDGLCK 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 = 50.1 bits (121), Expect = 2e-08
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN 198
           N L+D  C+  + + AL +F EM  +G  P+  +Y IL+ GLC 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 55.3 bits (133), Expect = 6e-08
 Identities = 70/324 (21%), Positives = 133/324 (41%), Gaps = 33/324 (10%)

Query: 163 QCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG 222
           +  + D    VF EM   G   +  ++  L+ G     ++ +A    +  +  +  K   
Sbjct: 484 KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA----FGAYGIMRSKNVK 539

Query: 223 EDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRID---------LCPCND 273
            D V++  L+ A    G +  A  +L ++        K+  H ID         +  C +
Sbjct: 540 PDRVVFNALISACGQSGAVDRAFDVLAEM--------KAETHPIDPDHITVGALMKACAN 591

Query: 274 GEDIEGAK---SLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPS 330
              ++ AK    +I+E  I+G   +   Y+        +G       + D+M+ KG  P 
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKG---TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPD 648

Query: 331 LVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYL 390
            V + A +      G +D+A E++++   +G  + TV  Y+ L+    +A N   A+   
Sbjct: 649 EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV-SYSSLMGACSNAKNWKKALELY 707

Query: 391 KKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS 450
           + + K +       T   L+  LC   +  +A  VL EM      P   TY++L+     
Sbjct: 708 EDI-KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA-SE 765

Query: 451 IGKQYEAVMWLEEMISQAKLPDIS 474
             ++ +A + L +++SQAK   I 
Sbjct: 766 --RKDDADVGL-DLLSQAKEDGIK 786

Length = 1060

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

 Score = 48.1 bits (116), Expect = 7e-08
 Identities = 16/32 (50%), Positives = 20/32 (62%)

Query: 398 GCVANGETYGILVDGLCRDGRFLEASRVLEEM 429
           G   +  TY  L+DGLCR GR  EA  +L+EM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 53.3 bits (128), Expect = 2e-07
 Identities = 85/409 (20%), Positives = 143/409 (34%), Gaps = 91/409 (22%)

Query: 48  YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLS 107
           Y ++I   ++S ++  M EV  +M     E     F   I   ARAGQ+ +A   +  + 
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 108 QFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS 167
             N       FN L+                                         C +S
Sbjct: 535 SKNVKPDRVVFNALIS---------------------------------------ACGQS 555

Query: 168 ---DLALHVFQEM--DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG 222
              D A  V  EM  +     PD  +   LMK   N  +++ A   +Y M    + KG+ 
Sbjct: 556 GAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE-VYQMIHEYNIKGTP 614

Query: 223 EDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKS 282
           E   +Y   + +   +G    A+ I + + +KG+K                         
Sbjct: 615 E---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVK------------------------- 646

Query: 283 LINEALIRGGIPSLASYSAMAIDLY-NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAAL 341
                      P    +SA+ +D+  + G + +  ++L + R +G     V Y + + A 
Sbjct: 647 -----------PDEVFFSAL-VDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 342 FKDGMVDEALEVIEEEMVKGT-FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCV 400
                  +ALE+ E+  +K     PTV   N L+  LC+      A+  L +M K++G  
Sbjct: 695 SNAKNWKKALELYED--IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEM-KRLGLC 751

Query: 401 ANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLC 449
            N  TY IL+    R         +L +       P +     +  GLC
Sbjct: 752 PNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLC 799

Length = 1060

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

 Score = 46.2 bits (111), Expect = 4e-07
 Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 329 PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD 379
           P +V Y   +    K G V+EAL++  E M K    P V  Y+IL+ GLC 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNE-MKKRGIKPNVYTYSILIDGLCK 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 51.8 bits (124), Expect = 6e-07
 Identities = 52/256 (20%), Positives = 106/256 (41%), Gaps = 16/256 (6%)

Query: 47  VYASMIGILSESNRITEMKEVIDQMKGDSCECK-DSVFATA-IRTYARAGQLNEAVSLFK 104
           V+ ++I    +S  +    +V+ +MK ++     D +   A ++  A AGQ++ A  +++
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 105 NLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQS----LNLLMDV 160
            + ++N     + +   +    ++   +     F  S Y    K  ++      + L+DV
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWD-----FALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKG 220
                  D A  + Q+   QG      SY  LM    N +   +A  L    +  I    
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL----YEDIKSIK 714

Query: 221 SGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGA 280
               +     L+ ALC+  ++  A+++L ++ R GL  P +  + I L      +D +  
Sbjct: 715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLC-PNTITYSILLVASERKDDADVG 773

Query: 281 KSLINEALIRGGIPSL 296
             L+++A   G  P+L
Sbjct: 774 LDLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 39.7 bits (94), Expect = 9e-05
 Identities = 19/51 (37%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 436 PCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCN 486
           P V TYN LI G C  GK  EA+    EM  +   P++  +S L+    C 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI-DGLCK 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 46/176 (26%), Positives = 78/176 (44%), Gaps = 23/176 (13%)

Query: 304 IDLYNE-GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEE------ 356
           ID+Y++ G I +   V D M  K    + V + + LA     G  +EAL +  E      
Sbjct: 266 IDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV 321

Query: 357 EMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRD 416
            + + TF   +R+++ L   L +    A A +        +  VAN      LVD   + 
Sbjct: 322 SIDQFTFSIMIRIFSRL--ALLEHAKQAHAGLIRTGFPLDI--VANTA----LVDLYSKW 373

Query: 417 GRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPD 472
           GR  +A  V + M  ++    + ++N LI G  + G+  +AV   E MI++   P+
Sbjct: 374 GRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN 425

Length = 697

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

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 86/417 (20%), Positives = 155/417 (37%), Gaps = 53/417 (12%)

Query: 27  ALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA 86
           A ++F E  E+      N   + ++IG L ++    E   +  +M  D  + +   F   
Sbjct: 177 ARRLFDEMPER------NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVM 230

Query: 87  IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILF----LRSC 142
           +R  A  G       L   + +   V  T     L+    K   +E A  +F     ++ 
Sbjct: 231 LRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTT 290

Query: 143 YGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL 202
             W   S +    L          S+ AL ++ EM   G   D+ ++ I M  + +   L
Sbjct: 291 VAW--NSMLAGYALH-------GYSEEALCLYYEMRDSGVSIDQFTFSI-MIRIFSRLAL 340

Query: 203 NEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK------GL 256
            E     ++    + + G   DIV    L+      G+++DA  + +++ RK       L
Sbjct: 341 LEHAKQAHA---GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNAL 397

Query: 257 KAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGD 316
            A      R         + +E  + +I E +    +  LA  SA        G   +G 
Sbjct: 398 IAGYGNHGRGT-------KAVEMFERMIAEGVAPNHVTFLAVLSACRY----SGLSEQGW 446

Query: 317 KVLDEM-RTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLK 375
           ++   M       P  + Y   +  L ++G++DEA  +I     +  F PTV ++  LL 
Sbjct: 447 EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR----RAPFKPTVNMWAALLT 502

Query: 376 GLCDAGN---SAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEM 429
                 N     +A   L  M  +         Y +L++     GR  EA++V+E +
Sbjct: 503 ACRIHKNLELGRLAAEKLYGMGPE-----KLNNYVVLLNLYNSSGRQAEAAKVVETL 554

Length = 697

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

 Score = 36.7 bits (86), Expect = 8e-04
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD 185
           + N L+D LC+  R + AL +F+EM  +G  PD
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 36.2 bits (85), Expect = 0.002
 Identities = 11/34 (32%), Positives = 25/34 (73%)

Query: 224 DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLK 257
           D+V Y TL+   C +GK+++A+++  ++ ++G+K
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIK 35

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|205109 pfam12854, PPR_1, PPR repeat

 Score = 34.6 bits (81), Expect = 0.004
 Identities = 14/32 (43%), Positives = 16/32 (50%)

Query: 363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMS 394
             P V  YN L+ GLC AG    AV  L +M 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	504
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
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	99.95
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.9
PRK14574	822	hmsH outer membrane protein; Provisional	99.89
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.88
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.85
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG2003	840	consensus TPR repeat-containing protein [General f	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG2076	895	consensus RNA polymerase III transcription factor	99.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.77
KOG2076	895	consensus RNA polymerase III transcription factor	99.76
KOG2003	840	consensus TPR repeat-containing protein [General f	99.76
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.75
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.7
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.69
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.67
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.66
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.64
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.63
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.6
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.58
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.58
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.54
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.54
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.49
PRK12370	553	invasion protein regulator; Provisional	99.48
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.47
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.47
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.47
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.47
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.42
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.41
PF13041	50	PPR_2: PPR repeat family	99.41
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.4
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.39
PRK12370	553	invasion protein regulator; Provisional	99.37
PF13041	50	PPR_2: PPR repeat family	99.37
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.36
KOG1129	478	consensus TPR repeat-containing protein [General f	99.35
KOG1129	478	consensus TPR repeat-containing protein [General f	99.34
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.34
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.3
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.28
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.25
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.25
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.22
PRK11189	296	lipoprotein NlpI; Provisional	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.18
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.17
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.15
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.14
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.07
KOG1125	579	consensus TPR repeat-containing protein [General f	99.07
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.03
PRK04841	903	transcriptional regulator MalT; Provisional	99.03
PRK04841	903	transcriptional regulator MalT; Provisional	99.02
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.0
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.97
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.96
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.94
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.93
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.89
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.88
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.88
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.87
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.86
PLN02789	320	farnesyltranstransferase	98.84
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.81
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.78
KOG1125	579	consensus TPR repeat-containing protein [General f	98.76
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.75
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
PF12854	34	PPR_1: PPR repeat	98.73
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.73
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.73
PF12854	34	PPR_1: PPR repeat	98.72
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.71
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.66
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.65
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.64
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.63
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.62
PLN02789	320	farnesyltranstransferase	98.62
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.62
PRK15359	144	type III secretion system chaperone protein SscB;	98.61
PRK15359	144	type III secretion system chaperone protein SscB;	98.6
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.51
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.46
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.44
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.42
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.37
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.31
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.3
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.27
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.25
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.25
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.25
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.24
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.24
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.18
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.18
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.14
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.13
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.13
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.11
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.09
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.07
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.04
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.04
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.99
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.98
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.97
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.97
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.96
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.96
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.95
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.9
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.89
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.89
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.88
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.86
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.86
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.85
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.85
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.84
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.83
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.83
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.81
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.81
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.8
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.78
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.78
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.72
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.65
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.63
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.63
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.63
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.62
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.57
KOG0553	304	consensus TPR repeat-containing protein [General f	97.54
PRK10803	263	tol-pal system protein YbgF; Provisional	97.53
KOG0553	304	consensus TPR repeat-containing protein [General f	97.53
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.51
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.47
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.44
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.43
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.42
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.42
PF12688	120	TPR_5: Tetratrico peptide repeat	97.41
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.41
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.4
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.39
PF12688	120	TPR_5: Tetratrico peptide repeat	97.38
PF13371	73	TPR_9: Tetratricopeptide repeat	97.36
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.35
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.34
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.28
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.27
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.26
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.21
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.16
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.14
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.12
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.12
PF13371	73	TPR_9: Tetratricopeptide repeat	97.11
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.08
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.02
PRK10803	263	tol-pal system protein YbgF; Provisional	96.99
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.94
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.91
PRK15331	165	chaperone protein SicA; Provisional	96.91
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.86
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.84
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.82
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	96.81
PF13512	142	TPR_18: Tetratricopeptide repeat	96.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.79
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.7
KOG4555	175	consensus TPR repeat-containing protein [Function	96.69
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.66
PRK15331	165	chaperone protein SicA; Provisional	96.65
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.65
PF13428	44	TPR_14: Tetratricopeptide repeat	96.63
PRK11906	458	transcriptional regulator; Provisional	96.61
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.61
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.61
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.61
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	96.55
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.51
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.46
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.43
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.41
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.31
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.31
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.25
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.22
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.21
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.2
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.19
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.18
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.17
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.16
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.13
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.08
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.04
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.03
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.03
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.98
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.87
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.79
KOG3941	406	consensus Intermediate in Toll signal transduction	95.57
KOG4555	175	consensus TPR repeat-containing protein [Function	95.51
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.43
KOG3941	406	consensus Intermediate in Toll signal transduction	95.41
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.41
PF13431	34	TPR_17: Tetratricopeptide repeat	95.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.39
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.37
PF13428	44	TPR_14: Tetratricopeptide repeat	95.34
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.24
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.24
PF13512	142	TPR_18: Tetratricopeptide repeat	95.13
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.04
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.88
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.71
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.48
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.44
PRK11906	458	transcriptional regulator; Provisional	94.36
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.99
KOG1258	577	consensus mRNA processing protein [RNA processing	93.78
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.66
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.62
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.46
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.44
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.16
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.97
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.88
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.79
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.77
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	92.63
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.61
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.48
COG1747	711	Uncharacterized N-terminal domain of the transcrip	92.07
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.01
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.97
PF13431	34	TPR_17: Tetratricopeptide repeat	91.9
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	91.74
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.73
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.72
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.68
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	91.24
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.13
KOG1585	308	consensus Protein required for fusion of vesicles	91.09
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.04
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.98
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	90.91
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.9
KOG1585	308	consensus Protein required for fusion of vesicles	90.65
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.57
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	90.56
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.39
KOG1258	577	consensus mRNA processing protein [RNA processing	90.23
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.2
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.14
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.04
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.91
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.52
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.35
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.33
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.11
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.05
KOG4648	536	consensus Uncharacterized conserved protein, conta	88.94
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	88.83
PRK11619	644	lytic murein transglycosylase; Provisional	88.73
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.89
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.61
KOG4234	271	consensus TPR repeat-containing protein [General f	87.58
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.07
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.03
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.01
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.81
KOG3807	556	consensus Predicted membrane protein ST7 (tumor su	86.73
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.65
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.6
KOG0687	393	consensus 26S proteasome regulatory complex, subun	86.19
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.17
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	86.01
PF13929	292	mRNA_stabil: mRNA stabilisation	85.91
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	85.46
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.27
KOG4507	886	consensus Uncharacterized conserved protein, conta	85.12
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	84.72
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	84.46
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.53
KOG0687	393	consensus 26S proteasome regulatory complex, subun	83.42
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.42
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.09
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.04
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.75
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	82.61
KOG1586	288	consensus Protein required for fusion of vesicles	81.92
COG3947	361	Response regulator containing CheY-like receiver a	81.77
PF13762	145	MNE1: Mitochondrial splicing apparatus component	81.6
KOG4234	271	consensus TPR repeat-containing protein [General f	81.38
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.34
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.96

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.6e-70  Score=539.12  Aligned_cols=484  Identities=17%  Similarity=0.201  Sum_probs=387.7

Q ss_pred             CCCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH
Q 043204            4 RWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF   83 (504)
Q Consensus         4 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (504)
                      ..++...|..++..+.+.|++++|+++|++|.+.+ -+.++..+++.++..|.+.|..++|..+|+.|..    ||..+|
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~g-vv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Ty  440 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRG-LLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTF  440 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCC-CCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHH
Confidence            34566678888888888999999999999998872 1345666777778888888888888888887764    788888


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      +.++.+|++.|+++.|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|... ++.||..+|+.||.+|++
T Consensus       441 n~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~-Gv~PdvvTynaLI~gy~k  519 (1060)
T PLN03218        441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCAR  519 (1060)
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888888888888888754 677888888888888888


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhh--CCCCcCHHHHHHHHHHHHhcCch
Q 043204          164 CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQ--KGSGEDIVIYRTLLFALCDQGKI  241 (504)
Q Consensus       164 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~  241 (504)
                      .|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|    ..  .|+.||..+|++++.+|++.|++
T Consensus       520 ~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM----~~~~~gi~PD~vTynaLI~ay~k~G~l  595 (1060)
T PLN03218        520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM----KAETHPIDPDHITVGALMKACANAGQV  595 (1060)
T ss_pred             CcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHhcCCCCCcHHHHHHHHHHHHHCCCH
Confidence            8888888888888888888888888888888888888888888888888    43  56788888888888888888888


Q ss_pred             hHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 043204          242 QDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDE  321 (504)
Q Consensus       242 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  321 (504)
                      ++|.++|++|.+.++.|+ ...+..++..|.+.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++
T Consensus       596 deA~elf~~M~e~gi~p~-~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        596 DRAKEVYQMIHEYNIKGT-PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            888888888888877644 4445555777778888888888888888888888888888888888888888888888888


Q ss_pred             HHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC
Q 043204          322 MRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA  401 (504)
Q Consensus       322 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  401 (504)
                      |.+.|+.|+..+|+++|.+|++.|++++|.++|++ |...|+.||..+|+.+|.+|++.|++++|.++|++|.+. |+.|
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~e-M~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~-Gi~P  752 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED-IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL-GLCP  752 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCC
Confidence            88888888888888888888888888888888887 777778888888888888888888888888888888777 8888


Q ss_pred             chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc----c-------------------CCHHHHH
Q 043204          402 NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS----I-------------------GKQYEAV  458 (504)
Q Consensus       402 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------g~~~~a~  458 (504)
                      |..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.++..|.+    +                   +..++|.
T Consensus       753 d~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al  832 (1060)
T PLN03218        753 NTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWAL  832 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHH
Confidence            8888888888888888888888888888888888888888888765432    1                   1235688


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 043204          459 MWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLS  501 (504)
Q Consensus       459 ~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~  501 (504)
                      .+|++|.+.|+.||..||+.++.+++..++ .+.+..+++.|.
T Consensus       833 ~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~-~~~~~~m~~~m~  874 (1060)
T PLN03218        833 MVYRETISAGTLPTMEVLSQVLGCLQLPHD-ATLRNRLIENLG  874 (1060)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhccccc-HHHHHHHHHHhc
Confidence            888888888888888888888877666655 777777776664

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.2e-70  Score=537.01  Aligned_cols=482  Identities=17%  Similarity=0.179  Sum_probs=453.2

Q ss_pred             CCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHH
Q 043204            6 PRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFAT   85 (504)
Q Consensus         6 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (504)
                      |+...++.++..|.+.|.+++|+.+|+.|..      ||..+|+.++.+|++.|++++|.++|+.|.+.|+.||..+|+.
T Consensus       404 ~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~------pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tyns  477 (1060)
T PLN03218        404 MDKIYHAKFFKACKKQRAVKEAFRFAKLIRN------PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTT  477 (1060)
T ss_pred             chHHHHHHHHHHHHHCCCHHHHHHHHHHcCC------CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            4555677788899999999999999998864      5999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      +|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|... ++.||..+|+.||.+|++.|
T Consensus       478 LI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~-Gv~PD~vTYnsLI~a~~k~G  556 (1060)
T PLN03218        478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKPDRVVFNALISACGQSG  556 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999999999999999999865 78999999999999999999


Q ss_pred             CHHHHHHHHHHhhh--CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH
Q 043204          166 RSDLALHVFQEMDF--QGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD  243 (504)
Q Consensus       166 ~~~~a~~~~~~~~~--~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  243 (504)
                      ++++|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|+.|    .+.|+.|+..+|+.++.+|++.|++++
T Consensus       557 ~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M----~e~gi~p~~~tynsLI~ay~k~G~~de  632 (1060)
T PLN03218        557 AVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI----HEYNIKGTPEVYTIAVNSCSQKGDWDF  632 (1060)
T ss_pred             CHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHcCCCCChHHHHHHHHHHHhcCCHHH
Confidence            99999999999986  688999999999999999999999999999999    899999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 043204          244 AMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMR  323 (504)
Q Consensus       244 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  323 (504)
                      |.++|++|.+.|+.|+ ..++..++..|.+.|+++.|.+++++|.+.|..|+..+|+.+|.+|++.|++++|.++|++|.
T Consensus       633 Al~lf~eM~~~Gv~PD-~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~  711 (1060)
T PLN03218        633 ALSIYDDMKKKGVKPD-EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK  711 (1060)
T ss_pred             HHHHHHHHHHcCCCCC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            9999999999999876 455666688999999999999999999999999999999999999999999999999999999


Q ss_pred             HCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCch
Q 043204          324 TKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANG  403 (504)
Q Consensus       324 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~  403 (504)
                      +.|+.||..+|+.||.+|++.|++++|.++|++ |...|+.||..+|+.++.+|++.|+++.|.+++++|.+. |+.||.
T Consensus       712 ~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~e-M~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~  789 (1060)
T PLN03218        712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSE-MKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNL  789 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCH
Confidence            999999999999999999999999999999998 888999999999999999999999999999999999998 999999


Q ss_pred             hhHHHHHHHHhh----c-------------------CcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHH
Q 043204          404 ETYGILVDGLCR----D-------------------GRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMW  460 (504)
Q Consensus       404 ~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  460 (504)
                      .+|++++..|.+    +                   +..++|..+|++|.+.|+.||..||+.++.++.+.+....+..+
T Consensus       790 ~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m  869 (1060)
T PLN03218        790 VMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRL  869 (1060)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHH
Confidence            999999976542    1                   12467999999999999999999999999888899999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhcCC
Q 043204          461 LEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSCS  504 (504)
Q Consensus       461 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~  504 (504)
                      ++.|...+..|+..+|++++.+++..   .++|..++++|.+.|
T Consensus       870 ~~~m~~~~~~~~~~~y~~Li~g~~~~---~~~A~~l~~em~~~G  910 (1060)
T PLN03218        870 IENLGISADSQKQSNLSTLVDGFGEY---DPRAFSLLEEAASLG  910 (1060)
T ss_pred             HHHhccCCCCcchhhhHHHHHhhccC---hHHHHHHHHHHHHcC
Confidence            99998888899999999999986432   468999999999876

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.6e-67  Score=525.12  Aligned_cols=472  Identities=14%  Similarity=0.130  Sum_probs=284.3

Q ss_pred             CCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         5 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      .||..+||.++.+|.+.|++++|+++|++|...  |+.||..+|+.++.+|+..+++..+.+++..|.+.|+.||..+++
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~--g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n  226 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA--GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVN  226 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHc--CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHh
Confidence            355666666666666666666666666666555  555666666555555555555555555555555555555555555


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .++.+|++.|+++.|.++|++|.+    |+..+|+++|.+|++.|++++|..+|++|... ++.||..+|+.++.+|++.
T Consensus       227 ~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-g~~Pd~~ty~~ll~a~~~~  301 (857)
T PLN03077        227 ALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMREL-SVDPDLMTITSVISACELL  301 (857)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhc
Confidence            555555555555555555555542    33455555555555555555555555555533 4555555555555555555


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  244 (504)
                      |+.+.|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.++|++|    .    .||..+|++++.+|++.|++++|
T Consensus       302 g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m----~----~~d~~s~n~li~~~~~~g~~~~A  373 (857)
T PLN03077        302 GDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM----E----TKDAVSWTAMISGYEKNGLPDKA  373 (857)
T ss_pred             CChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhC----C----CCCeeeHHHHHHHHHhCCCHHHH
Confidence            555555555555555555555556666666666666666666655555    2    34555566666666666666666


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  324 (504)
                      .++|++|.+.|+.|+..++..+ +..|.+.|+++.|.++++.+.+.|..|+..+++.++.+|++.|++++|.++|++|.+
T Consensus       374 ~~lf~~M~~~g~~Pd~~t~~~l-l~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        374 LETYALMEQDNVSPDEITIASV-LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             HHHHHHHHHhCCCCCceeHHHH-HHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence            6666666555555444333333 345555566666666666666655555556666666666666666666665555543


Q ss_pred             CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCC-----
Q 043204          325 KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGC-----  399 (504)
Q Consensus       325 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  399 (504)
                          +|..+|+.++.+|++.|+.++|..+|++ |.. ++.||..||+.++.+|++.|+.+.+.+++..+.+. |+     
T Consensus       453 ----~d~vs~~~mi~~~~~~g~~~eA~~lf~~-m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~  525 (857)
T PLN03077        453 ----KDVISWTSIIAGLRLNNRCFEALIFFRQ-MLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGF  525 (857)
T ss_pred             ----CCeeeHHHHHHHHHHCCCHHHHHHHHHH-HHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccce
Confidence                3455555555555555555555555555 332 35566666655555555444444444444444433 33     


Q ss_pred             -------------------------CCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCH
Q 043204          400 -------------------------VANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQ  454 (504)
Q Consensus       400 -------------------------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  454 (504)
                                               .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++
T Consensus       526 ~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v  605 (857)
T PLN03077        526 LPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMV  605 (857)
T ss_pred             echHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChH
Confidence                                     3455566677777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHH-HcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          455 YEAVMWLEEMI-SQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       455 ~~a~~~~~~~~-~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                      ++|.++|+.|. +.|+.|+..+|++++.+|++.|. +++|.+++++|
T Consensus       606 ~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~-~~eA~~~~~~m  651 (857)
T PLN03077        606 TQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGK-LTEAYNFINKM  651 (857)
T ss_pred             HHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC-HHHHHHHHHHC
Confidence            77777777777 56777777777777777777766 77777777776

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.7e-67  Score=525.79  Aligned_cols=466  Identities=16%  Similarity=0.149  Sum_probs=438.6

Q ss_pred             CCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         5 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      .|+..++|.|+..|++.|++++|.++|++|.+.      |..+||++|.+|++.|++++|.++|++|.+.|+.||..+|+
T Consensus       219 ~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~------d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~  292 (857)
T PLN03077        219 ELDVDVVNALITMYVKCGDVVSARLVFDRMPRR------DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT  292 (857)
T ss_pred             CcccchHhHHHHHHhcCCCHHHHHHHHhcCCCC------CcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHH
Confidence            378889999999999999999999999999753      88999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .++.+|.+.|+.+.|.+++..|.+.|+.|+..+|++|+.+|++.|++++|.++|++|.     .||..+||++|.+|++.
T Consensus       293 ~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~d~~s~n~li~~~~~~  367 (857)
T PLN03077        293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-----TKDAVSWTAMISGYEKN  367 (857)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCeeeHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999999999999985     46888999999999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  244 (504)
                      |++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+    .+.|..|+..+|++|+.+|++.|++++|
T Consensus       368 g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~----~~~g~~~~~~~~n~Li~~y~k~g~~~~A  443 (857)
T PLN03077        368 GLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELA----ERKGLISYVVVANALIEMYSKCKCIDKA  443 (857)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHH----HHhCCCcchHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999999999999999999999999999999999999    8999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  324 (504)
                      .++|++|.+.     +...++.++..+...|+.++|..+|++|.. +..||..+|+.++.+|++.|+++.+.+++..+.+
T Consensus       444 ~~vf~~m~~~-----d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~  517 (857)
T PLN03077        444 LEVFHNIPEK-----DVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR  517 (857)
T ss_pred             HHHHHhCCCC-----CeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH
Confidence            9999998643     345666778888999999999999999986 5899999999999999999999999999999999


Q ss_pred             CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchh
Q 043204          325 KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGE  404 (504)
Q Consensus       325 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~  404 (504)
                      .|+.++..++++|+++|++.|++++|.++|+. +     .||..+|+.+|.+|++.|+.++|.++|++|.+. |+.||..
T Consensus       518 ~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~-~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~-g~~Pd~~  590 (857)
T PLN03077        518 TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS-H-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVES-GVNPDEV  590 (857)
T ss_pred             hCCCccceechHHHHHHHHcCCHHHHHHHHHh-c-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCCcc
Confidence            99999999999999999999999999999987 4     589999999999999999999999999999988 9999999


Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHH-hcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEML-IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASV  483 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~  483 (504)
                      ||+.++.+|.+.|++++|.++|+.|. +.|+.|+..+|+.++++|++.|++++|.+++++|   +++||..+|.+|+.+|
T Consensus       591 T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd~~~~~aLl~ac  667 (857)
T PLN03077        591 TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNAC  667 (857)
T ss_pred             cHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999 6799999999999999999999999999999999   5899999999999984


Q ss_pred             hcCCCchhHHHHHHHHhhc
Q 043204          484 CCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       484 ~~~~~~~~~a~~~~~~~~~  502 (504)
                       +.+++.+.++...+++.+
T Consensus       668 -~~~~~~e~~e~~a~~l~~  685 (857)
T PLN03077        668 -RIHRHVELGELAAQHIFE  685 (857)
T ss_pred             -HHcCChHHHHHHHHHHHh
Confidence             555558888877777654

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

Probab=100.00  E-value=1.1e-66  Score=510.13  Aligned_cols=472  Identities=15%  Similarity=0.160  Sum_probs=445.2

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +..+|+.++..|.+.|++++|+++|++|.... +..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.+
T Consensus        86 ~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~-~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         86 SGVSLCSQIEKLVACGRHREALELFEILEAGC-PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CceeHHHHHHHHHcCCCHHHHHHHHHHHHhcC-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            44589999999999999999999999998753 46799999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      +.+|++.|+++.|.++|++|.+    |+..+|+.++.+|++.|++++|.++|++|... +..|+..+|+.++.+|++.|+
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~-g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWED-GSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHh-CCCCChhhHHHHHHHHhcCCc
Confidence            9999999999999999999975    67889999999999999999999999999865 789999999999999999999


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      .+.+.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|+.|    .    .+|..+|++++.+|++.|++++|.+
T Consensus       240 ~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m----~----~~~~vt~n~li~~y~~~g~~~eA~~  311 (697)
T PLN03081        240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----P----EKTTVAWNSMLAGYALHGYSEEALC  311 (697)
T ss_pred             HHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhC----C----CCChhHHHHHHHHHHhCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999998    3    4689999999999999999999999


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      +|++|.+.|+.|+.. ++..++..|.+.|+++.|.+++..+.+.|..||..+++.++.+|++.|++++|.++|++|.+  
T Consensus       312 lf~~M~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~--  388 (697)
T PLN03081        312 LYYEMRDSGVSIDQF-TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR--  388 (697)
T ss_pred             HHHHHHHcCCCCCHH-HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC--
Confidence            999999999886655 56666899999999999999999999999999999999999999999999999999999965  


Q ss_pred             CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhH
Q 043204          327 FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETY  406 (504)
Q Consensus       327 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~  406 (504)
                        ||..+|++||.+|++.|+.++|.++|++ |...|+.||..||+.++.+|++.|+.++|.++|+.|.+.+++.|+..+|
T Consensus       389 --~d~~t~n~lI~~y~~~G~~~~A~~lf~~-M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y  465 (697)
T PLN03081        389 --KNLISWNALIAGYGNHGRGTKAVEMFER-MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY  465 (697)
T ss_pred             --CCeeeHHHHHHHHHHcCCHHHHHHHHHH-HHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccch
Confidence              6999999999999999999999999999 8889999999999999999999999999999999998866999999999


Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc
Q 043204          407 GILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPD-ISVWSSLVASVCC  485 (504)
Q Consensus       407 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~ll~~~~~  485 (504)
                      ++++++|++.|++++|.+++++|   ++.|+..+|++++.+|...|+++.|.++++++.  +..|+ ..+|..++..|++
T Consensus       466 ~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~--~~~p~~~~~y~~L~~~y~~  540 (697)
T PLN03081        466 ACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GMGPEKLNNYVVLLNLYNS  540 (697)
T ss_pred             HhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh--CCCCCCCcchHHHHHHHHh
Confidence            99999999999999999999876   567999999999999999999999999999998  55675 5799999999999


Q ss_pred             CCCchhHHHHHHHHhhcCC
Q 043204          486 NTADLNVCRKTLEQLSSCS  504 (504)
Q Consensus       486 ~~~~~~~a~~~~~~~~~~~  504 (504)
                      .|+ +++|.+++++|.++|
T Consensus       541 ~G~-~~~A~~v~~~m~~~g  558 (697)
T PLN03081        541 SGR-QAEAAKVVETLKRKG  558 (697)
T ss_pred             CCC-HHHHHHHHHHHHHcC
Confidence            988 999999999999875

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

Probab=100.00  E-value=1.5e-62  Score=481.14  Aligned_cols=436  Identities=17%  Similarity=0.174  Sum_probs=414.5

Q ss_pred             cchhcHHHHHHHHhccCChhHHHHHHHHhhcCC-CCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH
Q 043204           43 HNGPVYASMIGILSESNRITEMKEVIDQMKGDS-CECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL  121 (504)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (504)
                      ++..+|+.+|..+.+.|++++|.++|+.|...+ +.||..+|+.++.+|.+.++++.|.+++..|.+.|+.|+..+|+.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            355689999999999999999999999998764 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043204          122 LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR  201 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  201 (504)
                      +.+|++.|+++.|.++|++|.     .||..+||+++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~-----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMP-----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC-----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCc
Confidence            999999999999999999995     368999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHH
Q 043204          202 LNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAK  281 (504)
Q Consensus       202 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  281 (504)
                      .+.+.+++..+    .+.|..||..+|++|+.+|++.|++++|.++|++|..     .+...+..++..|.+.|+.++|.
T Consensus       240 ~~~~~~l~~~~----~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~~~vt~n~li~~y~~~g~~~eA~  310 (697)
T PLN03081        240 ARAGQQLHCCV----LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE-----KTTVAWNSMLAGYALHGYSEEAL  310 (697)
T ss_pred             HHHHHHHHHHH----HHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC-----CChhHHHHHHHHHHhCCCHHHHH
Confidence            99999999988    8999999999999999999999999999999999853     45667778899999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC
Q 043204          282 SLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG  361 (504)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  361 (504)
                      ++|++|.+.|+.||..+|+.++.+|++.|++++|.+++..|.+.|+.||..++++|+++|++.|++++|.++|++ |.  
T Consensus       311 ~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~-m~--  387 (697)
T PLN03081        311 CLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDR-MP--  387 (697)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHh-CC--
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999998 65  


Q ss_pred             CCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh-cCcCCCcch
Q 043204          362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI-RSYWPCVET  440 (504)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~  440 (504)
                        .||..+|+.+|.+|++.|+.++|.++|++|.+. |+.||..||++++.+|.+.|++++|.++|+.|.+ .|+.|+..+
T Consensus       388 --~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~-g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~  464 (697)
T PLN03081        388 --RKNLISWNALIAGYGNHGRGTKAVEMFERMIAE-GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH  464 (697)
T ss_pred             --CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccc
Confidence              479999999999999999999999999999998 9999999999999999999999999999999986 599999999


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          441 YNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       441 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      |+.++++|++.|++++|.+++++|   ++.|+..+|++++.+|+..++ ++.|..+++++.+
T Consensus       465 y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~-~~~a~~~~~~l~~  522 (697)
T PLN03081        465 YACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKN-LELGRLAAEKLYG  522 (697)
T ss_pred             hHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCC-cHHHHHHHHHHhC
Confidence            999999999999999999999887   689999999999999666665 9999999998865

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

Probab=100.00  E-value=2.3e-31  Score=274.48  Aligned_cols=466  Identities=14%  Similarity=0.043  Sum_probs=366.1

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      ...++..+.+.|++++|+.+++.+....|+   +..++..+...+...|++++|.+.|+++.+.. +.+...+..+...+
T Consensus       434 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  509 (899)
T TIGR02917       434 DLLLILSYLRSGQFDKALAAAKKLEKKQPD---NASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARID  509 (899)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCC---CcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHH
Confidence            344556667777777777777777766554   66677778888888888888888888877765 55566677777888


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ...|++++|.+.|+.+.+.+ +.+..++..+...+.+.|+.++|...++++....  +.+...+..++..|...|++++|
T Consensus       510 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A  586 (899)
T TIGR02917       510 IQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN--PQEIEPALALAQYYLGKGQLKKA  586 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhHHHHHHHHHHHCCCHHHH
Confidence            88888888888888877655 3346677778888888888888888888876543  33455667788888888888888


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEK  250 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  250 (504)
                      .++++.+.+.. +.+..+|..+..++...|++++|...|+++    .+.. +.+...+..+..++...|++++|...+++
T Consensus       587 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  660 (899)
T TIGR02917       587 LAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKL----LALQ-PDSALALLLLADAYAVMKNYAKAITSLKR  660 (899)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888887653 346778888888888888888888888887    3332 23566777888888888888888888888


Q ss_pred             HHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcc
Q 043204          251 ILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPS  330 (504)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  330 (504)
                      +.+.  .|++......+...+...|+++.|..+++.+.+.... +...+..+...+...|++++|...|+.+...+  |+
T Consensus       661 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~  735 (899)
T TIGR02917       661 ALEL--KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PS  735 (899)
T ss_pred             HHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CC
Confidence            8765  4566666666777788888899999988888877543 56677777788888899999999999988865  44


Q ss_pred             hhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHH
Q 043204          331 LVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILV  410 (504)
Q Consensus       331 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  410 (504)
                      ..++..+..++.+.|++++|.+.+++.+...  +.+...+..+...|...|+.++|.++|+++.+.  .+++..+++.+.
T Consensus       736 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~  811 (899)
T TIGR02917       736 SQNAIKLHRALLASGNTAEAVKTLEAWLKTH--PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLA  811 (899)
T ss_pred             chHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            4677778888999999999999998855543  456778888888999999999999999999875  345677888999


Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCch
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADL  490 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~  490 (504)
                      ..+...|+ .+|...++++.+.. +-+..++..+...+...|++++|.++++++.+.+. .+..++..+..+++..|+ .
T Consensus       812 ~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~-~  887 (899)
T TIGR02917       812 WLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATGR-K  887 (899)
T ss_pred             HHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcCC-H
Confidence            99999999 88999999988763 34566777888899999999999999999998653 378888899999888888 9


Q ss_pred             hHHHHHHHHhhc
Q 043204          491 NVCRKTLEQLSS  502 (504)
Q Consensus       491 ~~a~~~~~~~~~  502 (504)
                      ++|.+++++|++
T Consensus       888 ~~A~~~~~~~~~  899 (899)
T TIGR02917       888 AEARKELDKLLN  899 (899)
T ss_pred             HHHHHHHHHHhC
Confidence            999999999864

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=4.1e-30  Score=265.20  Aligned_cols=465  Identities=13%  Similarity=0.023  Sum_probs=259.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .+...+.+.|++++|...++.+.+..|.   +...+..+...+.+.|++++|.++|+++.+.. +.+...+..+...+..
T Consensus       334 ~la~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  409 (899)
T TIGR02917       334 LLASIQLRLGRVDEAIATLSPALGLDPD---DPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLS  409 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHh
Confidence            3444445555555555555555544333   44455555555555555555555555555443 3334445555555555


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      .|++++|.+.|+.+.+.+... ......++..+.+.|++++|..+++.+...  .+++..++..+...+...|++++|.+
T Consensus       410 ~~~~~~A~~~~~~a~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~  486 (899)
T TIGR02917       410 QGDPSEAIADLETAAQLDPEL-GRADLLLILSYLRSGQFDKALAAAKKLEKK--QPDNASLHNLLGAIYLGKGDLAKARE  486 (899)
T ss_pred             CCChHHHHHHHHHHHhhCCcc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHhCCCHHHHHH
Confidence            555555555555554433221 223334445555555555555555555433  22334456666666666666666666


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          173 VFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      .|+++.+.. +.+...+..+...+...|++++|.+.++++    .... +.+..++..+...+.+.|+.++|..+++++.
T Consensus       487 ~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  560 (899)
T TIGR02917       487 AFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKV----LTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAA  560 (899)
T ss_pred             HHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666665543 223445555666666666666666666666    3322 2245566666666666666666666666665


Q ss_pred             HcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchh
Q 043204          253 RKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLV  332 (504)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  332 (504)
                      +.+  |.+......+...+...|+++.|..+++.+..... .+...|..+...+...|++++|...|+++.+... .+..
T Consensus       561 ~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  636 (899)
T TIGR02917       561 ELN--PQEIEPALALAQYYLGKGQLKKALAILNEAADAAP-DSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP-DSAL  636 (899)
T ss_pred             HhC--ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChH
Confidence            542  33334444455556666666666666666665433 2455666666666666777777777766665432 2455


Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHH
Q 043204          333 MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDG  412 (504)
Q Consensus       333 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  412 (504)
                      .+..+..++...|++++|...+++++...  +.+..++..+...+...|++++|.++++.+.+.  .+++...+..+...
T Consensus       637 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~  712 (899)
T TIGR02917       637 ALLLLADAYAVMKNYAKAITSLKRALELK--PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ--HPKAALGFELEGDL  712 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCChHHHHHHHHH
Confidence            56666666666667777766666633322  334555666666666666666666666666553  23344555556666


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhH
Q 043204          413 LCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNV  492 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  492 (504)
                      +...|++++|.+.++.+...+  |+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...+...|+ .++
T Consensus       713 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~-~~~  788 (899)
T TIGR02917       713 YLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKD-YDK  788 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC-HHH
Confidence            666666666666666666543  444555556666666666666666666665432 2233444444444333333 666


Q ss_pred             HHHHHHHhhc
Q 043204          493 CRKTLEQLSS  502 (504)
Q Consensus       493 a~~~~~~~~~  502 (504)
                      |..+++++.+
T Consensus       789 A~~~~~~~~~  798 (899)
T TIGR02917       789 AIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHH
Confidence            6666666543

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=99.95  E-value=9.1e-23  Score=210.69  Aligned_cols=476  Identities=12%  Similarity=0.001  Sum_probs=308.8

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhc----------------HHHHHHHHhccCChhHHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPV----------------YASMIGILSESNRITEMKEVIDQ   70 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~----------------~~~l~~~~~~~~~~~~a~~~~~~   70 (504)
                      ++..+..++..+.+.|+.++|.+.++++.+..|+   +...                ...+...+...|++++|.+.|+.
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~---~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~  137 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD---SNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDK  137 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC---ChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHH
Confidence            3444566778888889999999999999888776   3222                23334567888999999999998


Q ss_pred             hhcCCCCccHHH-HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCC--
Q 043204           71 MKGDSCECKDSV-FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEV--  147 (504)
Q Consensus        71 ~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--  147 (504)
                      +.+.+ +|+... ...........|+.++|++.|+++.+..+ .+...+..+...+...|+.++|+..++++......  
T Consensus       138 ~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P-~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~  215 (1157)
T PRK11447        138 LFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYP-GNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRD  215 (1157)
T ss_pred             HccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchH
Confidence            88765 444322 11112222345888899999998887753 34567778888888889999999988877543210  


Q ss_pred             ---------------cch-HHHH----------------------------------HHHHHHHhhcCCHHHHHHHHHHh
Q 043204          148 ---------------KSR-IQSL----------------------------------NLLMDVLCQCRRSDLALHVFQEM  177 (504)
Q Consensus       148 ---------------~~~-~~~~----------------------------------~~l~~~~~~~~~~~~a~~~~~~~  177 (504)
                                     .+. ...+                                  ......+...|++++|+..|++.
T Consensus       216 ~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~a  295 (1157)
T PRK11447        216 AAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQA  295 (1157)
T ss_pred             HHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                           000 0000                                  01134456778999999999988


Q ss_pred             hhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHH------------HHHHHHHHhcCchhHH
Q 043204          178 DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIY------------RTLLFALCDQGKIQDA  244 (504)
Q Consensus       178 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~------------~~l~~~~~~~g~~~~a  244 (504)
                      .+... .+...+..+..++.+.|++++|...|++.    .+..... ....+            ......+.+.|++++|
T Consensus       296 L~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~A----l~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA  370 (1157)
T PRK11447        296 VRANP-KDSEALGALGQAYSQQGDRARAVAQFEKA----LALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQA  370 (1157)
T ss_pred             HHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHH
Confidence            87642 26778888888899999999999999887    3332221 11111            1224466788889999


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHH-----------------------
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSA-----------------------  301 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----------------------  301 (504)
                      ...|+++++.  .|.+......+..++...|++++|++.|+++++.... +...+..                       
T Consensus       371 ~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~  447 (1157)
T PRK11447        371 ERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAFIASLSAS  447 (1157)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHHHHhCCHH
Confidence            9999988876  4555566666778888889999999999888866433 2222221                       


Q ss_pred             -------------------HHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          302 -------------------MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       302 -------------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                                         +...+...|++++|+..|++..+..+. +...+..+...|.+.|++++|...+++++....
T Consensus       448 ~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P  526 (1157)
T PRK11447        448 QRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP  526 (1157)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence                               122334568888888888888876533 566677788888888999999888888554432


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHh-------------------------------------c-CCCCchh
Q 043204          363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQ-------------------------------------V-GCVANGE  404 (504)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------------------------------~-~~~p~~~  404 (504)
                      -  +...+..+...+...++.++|...++.+...                                     . ..+.+..
T Consensus       527 ~--~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~  604 (1157)
T PRK11447        527 N--DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTR  604 (1157)
T ss_pred             C--CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCch
Confidence            2  2222222222233344444444433332110                                     0 0123344


Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI-SVWSSLVASV  483 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~~  483 (504)
                      .+..+...+.+.|++++|.+.|++..+.. +.+...+..++..+...|++++|++.+++..+.  .|+. ..+..+..++
T Consensus       605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~  681 (1157)
T PRK11447        605 IDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAW  681 (1157)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHH
Confidence            55667777778888888888888887753 345667777777888888888888888877643  4443 3344445554


Q ss_pred             hcCCCchhHHHHHHHHhhc
Q 043204          484 CCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       484 ~~~~~~~~~a~~~~~~~~~  502 (504)
                      ...++ +++|.++++++++
T Consensus       682 ~~~g~-~~eA~~~~~~al~  699 (1157)
T PRK11447        682 AALGD-TAAAQRTFNRLIP  699 (1157)
T ss_pred             HhCCC-HHHHHHHHHHHhh
Confidence            44444 8888888887754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=2.9e-22  Score=206.98  Aligned_cols=466  Identities=14%  Similarity=0.059  Sum_probs=301.3

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhc-HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPV-YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      ..+...+...|++++|++.|+.+.+..|.   +... ...+.......|+.++|++.|+++.+.. +.+...+..+...+
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p~---~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll  191 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGAPP---ELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLL  191 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCCCC---ChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            44556677778888888888887776443   2211 1111122234577777888887777765 55666677777777


Q ss_pred             HhcCChhHHHHHHHHhhhCCCC--------------------------------ccHHH-------H-------------
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCV--------------------------------NWTQS-------F-------------  118 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~--------------------------------~~~~~-------~-------------  118 (504)
                      ...|++++|+..|+++.+....                                |+...       +             
T Consensus       192 ~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~  271 (1157)
T PRK11447        192 FSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR  271 (1157)
T ss_pred             HccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH
Confidence            7777777777777766432110                                00000       0             


Q ss_pred             -HHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC-CHhhHH------
Q 043204          119 -NTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP-DRESYH------  190 (504)
Q Consensus       119 -~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~------  190 (504)
                       ......+...|++++|+..|++.....  +.+...+..+..++.+.|++++|+..|++..+..... +...+.      
T Consensus       272 ~~~~G~~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        272 ARAQGLAAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence             011334566788888888888776542  2245566777777888888888888888777653211 111111      


Q ss_pred             ------HHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhh
Q 043204          191 ------ILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRH  264 (504)
Q Consensus       191 ------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  264 (504)
                            .....+.+.|++++|...|+++    ..... .+...+..+..++...|++++|++.|+++.+..  |......
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~A----l~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~  422 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQA----RQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAV  422 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHH----HHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHH
Confidence                  1233456778888888888777    33322 245566677777888888888888888777653  2222111


Q ss_pred             hh------------------------------------------hccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 043204          265 RI------------------------------------------DLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAM  302 (504)
Q Consensus       265 ~~------------------------------------------~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (504)
                      ..                                          ....+...|++++|.+.+++.++..+. +...+..+
T Consensus       423 ~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~L  501 (1157)
T PRK11447        423 RGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRL  501 (1157)
T ss_pred             HHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            10                                          112234568888888888888876544 45566667


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHH--------------------------------------------H
Q 043204          303 AIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAK--------------------------------------------L  338 (504)
Q Consensus       303 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------------------------------------~  338 (504)
                      ...+.+.|++++|...++++.+..+. +...+..+                                            .
T Consensus       502 A~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a  580 (1157)
T PRK11447        502 AQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETA  580 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHH
Confidence            77788888888888888888765322 33222222                                            2


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCc
Q 043204          339 AALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGR  418 (504)
Q Consensus       339 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  418 (504)
                      ..+...|+.++|..+++.      .+.+...+..+...+.+.|++++|+..|+++.+.  -+.+...+..++..|...|+
T Consensus       581 ~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~  652 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGD  652 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            334444555555554441      2345556777888899999999999999999875  23356788999999999999


Q ss_pred             HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-C----CHHHHHHHHHHHhcCCCchhHH
Q 043204          419 FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKL-P----DISVWSSLVASVCCNTADLNVC  493 (504)
Q Consensus       419 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-p----~~~~~~~ll~~~~~~~~~~~~a  493 (504)
                      .++|.+.++...+.. +.+...+..+..++...|++++|.++++++....-. |    +...+..+... ....|+.++|
T Consensus       653 ~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~-~~~~G~~~~A  730 (1157)
T PRK11447        653 LAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARF-EAQTGQPQQA  730 (1157)
T ss_pred             HHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHH-HHHcCCHHHH
Confidence            999999999887753 234556677888899999999999999999864211 2    11344444554 4444459999


Q ss_pred             HHHHHHhhc
Q 043204          494 RKTLEQLSS  502 (504)
Q Consensus       494 ~~~~~~~~~  502 (504)
                      ...+++.+.
T Consensus       731 ~~~y~~Al~  739 (1157)
T PRK11447        731 LETYKDAMV  739 (1157)
T ss_pred             HHHHHHHHh
Confidence            999998763

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

Probab=99.94  E-value=1.8e-22  Score=177.92  Aligned_cols=439  Identities=14%  Similarity=0.088  Sum_probs=355.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .|..-..+.|++.+|++--...-+.+|.   +......+-..+.+..+.+....--....+.. +.-..+|..+.+.+-.
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d~t---~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQEDPT---NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccCCC---cccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            3455566788899998888777777665   44444444456667777776655544444443 5667889999999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHH-HHHHHHHhhcCCHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSL-NLLMDVLCQCRRSDLAL  171 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~  171 (504)
                      .|+++.|+.+++.+.+... .....|..+..++...|+.+.|...|.....   +.|+.... ..+...+-..|+.++|.
T Consensus       129 rg~~~~al~~y~~aiel~p-~fida~inla~al~~~~~~~~a~~~~~~alq---lnP~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKP-KFIDAYINLAAALVTQGDLELAVQCFFEALQ---LNPDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             hchHHHHHHHHHHHHhcCc-hhhHHHhhHHHHHHhcCCCcccHHHHHHHHh---cCcchhhhhcchhHHHHhhcccchhH
Confidence            9999999999999998763 3478899999999999999999999988874   34554333 33344455579999999


Q ss_pred             HHHHHhhhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          172 HVFQEMDFQGCYPD-RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       172 ~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      ..|.+..+.  .|. ...|+.|...+-.+|+...|++.|++.    .+  +.|+ ...|-.|...|...+.++.|...+.
T Consensus       205 ~cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eA----vk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~  276 (966)
T KOG4626|consen  205 ACYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEA----VK--LDPNFLDAYINLGNVYKEARIFDRAVSCYL  276 (966)
T ss_pred             HHHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHh----hc--CCCcchHHHhhHHHHHHHHhcchHHHHHHH
Confidence            999888876  343 467888888899999999999999987    33  4444 5688889999999999999999999


Q ss_pred             HHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCc
Q 043204          250 KILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWP  329 (504)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  329 (504)
                      .....  .|.....+..+...|...|+++.|+..+++.++..+. -...|+.+..++-..|++.+|.+.|.+....... 
T Consensus       277 rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-  352 (966)
T KOG4626|consen  277 RALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-  352 (966)
T ss_pred             HHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-
Confidence            88765  6788888888999999999999999999999987554 4678999999999999999999999999987543 


Q ss_pred             chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCch-hhHH
Q 043204          330 SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT-VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANG-ETYG  407 (504)
Q Consensus       330 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~  407 (504)
                      .....+.|...|...|.+++|..+|..++.-   .|. ...++.|...|-+.|++++|+..|++..   .+.|+. ..|+
T Consensus       353 hadam~NLgni~~E~~~~e~A~~ly~~al~v---~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~  426 (966)
T KOG4626|consen  353 HADAMNNLGNIYREQGKIEEATRLYLKALEV---FPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALS  426 (966)
T ss_pred             cHHHHHHHHHHHHHhccchHHHHHHHHHHhh---ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHH
Confidence            6678889999999999999999999985553   344 4578899999999999999999999988   568874 5789


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHH
Q 043204          408 ILVDGLCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDIS-VWSSLVA  481 (504)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~ll~  481 (504)
                      .+...|-..|+.+.|.+.+.+.+..+  |. ....+.|...|-.+|+..+|++-++..+  .++||.+ .+..++.
T Consensus       427 NmGnt~ke~g~v~~A~q~y~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPDfpdA~cNllh  498 (966)
T KOG4626|consen  427 NMGNTYKEMGDVSAAIQCYTRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPDFPDAYCNLLH  498 (966)
T ss_pred             hcchHHHHhhhHHHHHHHHHHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCCCchhhhHHHH
Confidence            99999999999999999999998854  54 5678889999999999999999999999  5678864 3444443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=1.5e-21  Score=180.38  Aligned_cols=313  Identities=15%  Similarity=0.099  Sum_probs=242.6

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCcc---HHHHHHHHHHHHh
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNW---TQSFNTLLKEMVK  127 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~  127 (504)
                      ....+...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3445667788999999999998876 55667788888889999999999999998877543222   2467788888999


Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHHhcCCHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR----ESYHILMKGLCNDRRLN  203 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~  203 (504)
                      .|++++|..+|+++...  .+++..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|+++
T Consensus       120 ~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        120 AGLLDRAEELFLQLVDE--GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             CCCHHHHHHHHHHHHcC--CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            99999999999998764  2345678888999999999999999999999876533322    24556777888999999


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL  283 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  283 (504)
                      +|...|+++    .+.. +.+...+..+...+.+.|++++|.++++++...+..                          
T Consensus       198 ~A~~~~~~a----l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~--------------------------  246 (389)
T PRK11788        198 AARALLKKA----LAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPE--------------------------  246 (389)
T ss_pred             HHHHHHHHH----HhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChh--------------------------
Confidence            999999988    3332 224667788889999999999999999998875211                          


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC
Q 043204          284 INEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF  363 (504)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  363 (504)
                                .....++.+..+|...|++++|...++++.+..  |+...+..++..+.+.|++++|..++++++..   
T Consensus       247 ----------~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---  311 (389)
T PRK11788        247 ----------YLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR---  311 (389)
T ss_pred             ----------hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---
Confidence                      123456778888999999999999999988864  55566688899999999999999999985554   


Q ss_pred             CccHHHHHHHHHHHHh---cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcH
Q 043204          364 VPTVRVYNILLKGLCD---AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRF  419 (504)
Q Consensus       364 ~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  419 (504)
                      .|+..++..++..+..   .|+.+++..+++++.++ ++.|++.      ..|.++|-.
T Consensus       312 ~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~-~~~~~p~------~~c~~cg~~  363 (389)
T PRK11788        312 HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE-QLKRKPR------YRCRNCGFT  363 (389)
T ss_pred             CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHH-HHhCCCC------EECCCCCCC
Confidence            5888888888877664   55889999999999987 7777766      235555544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=3.8e-21  Score=177.72  Aligned_cols=301  Identities=13%  Similarity=0.103  Sum_probs=151.5

Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc--hHHHHHHHHHHHhhcCC
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS--RIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~  166 (504)
                      .+...|++++|...|.++.+.+. .+..++..+...+...|++++|..+++.+...+...+  ....+..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            44556667777777777766542 2344566666666666666666666666654322211  12345555666666666


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchh
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED----IVIYRTLLFALCDQGKIQ  242 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~  242 (504)
                      +++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+    ...+..+.    ...+..+...+.+.|+++
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERL----EKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHH----HHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            666666666665432 234455566666666666666666666655    33222211    112334444455555555


Q ss_pred             HHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 043204          243 DAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEM  322 (504)
Q Consensus       243 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  322 (504)
                      +|...|+++.+...                                     .+...+..+...+.+.|++++|.++++++
T Consensus       198 ~A~~~~~~al~~~p-------------------------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~~  240 (389)
T PRK11788        198 AARALLKKALAADP-------------------------------------QCVRASILLGDLALAQGDYAAAIEALERV  240 (389)
T ss_pred             HHHHHHHHHHhHCc-------------------------------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55555555544311                                     02233344445555555555555555555


Q ss_pred             HHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc
Q 043204          323 RTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN  402 (504)
Q Consensus       323 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  402 (504)
                      .+.+......+++.++.+|...|++++|...+++ +...  .|+...+..+...+.+.|++++|..+++++.+.   .|+
T Consensus       241 ~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~-~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~P~  314 (389)
T PRK11788        241 EEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRR-ALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR---HPS  314 (389)
T ss_pred             HHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHH-HHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CcC
Confidence            5433222233444555555555555555555554 2221  233333444555555555555555555554432   344


Q ss_pred             hhhHHHHHHHHhh---cCcHHHHHHHHHHHHhcCcCCCc
Q 043204          403 GETYGILVDGLCR---DGRFLEASRVLEEMLIRSYWPCV  438 (504)
Q Consensus       403 ~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~  438 (504)
                      ...+..++..+..   .|+..++..+++++.+.++.|++
T Consensus       315 ~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        315 LRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             HHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            4445444444432   23455555555555554444443

>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=99.92  E-value=1.5e-19  Score=175.52  Aligned_cols=426  Identities=14%  Similarity=0.049  Sum_probs=282.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .....+.+.|++++|+..|+++.+..|    +...|..+..+|...|++++|++.++...+.. +.+...+..+..+|..
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~~p----~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIECKP----DPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCC----chHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            456677788999999999999887654    56678888889999999999999999988876 5667788888999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      .|++++|+.-|......+...+.. ...++..+........+...++.   .+...|.   +..+.. |......+....
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~---~~~~~~~---~~~~~~-~~~~~~~~~~~~  278 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILET---KPENLPS---VTFVGN-YLQSFRPKPRPA  278 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhc---CCCCCCC---HHHHHH-HHHHccCCcchh
Confidence            999999988887665443222221 11222211111112222222221   1111122   111211 211111111111


Q ss_pred             HHHHhhhCCCCCCH-hhHHHHHHH---HHhcCCHHHHHHHHHHHHHHHhhCC-CCc-CHHHHHHHHHHHHhcCchhHHHH
Q 043204          173 VFQEMDFQGCYPDR-ESYHILMKG---LCNDRRLNEATHLLYSMFWRISQKG-SGE-DIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       173 ~~~~~~~~~~~p~~-~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      -++...+.  .+.. ..+..+...   ....+++++|.+.|+..    ...+ ..| ....+..+...+...|++++|+.
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~a----l~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~  352 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKA----LDLGKLGEKEAIALNLRGTFKCLKGKHLEALA  352 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHH----HhcCCCChhhHHHHHHHHHHHHHcCCHHHHHH
Confidence            11111111  1111 111111111   12346788888888877    4432 223 34567777777888888888888


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      .+++.+..  .|.....+..+...+...|+++.|...++.+++.... +...+..+...+...|++++|...|++..+..
T Consensus       353 ~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~  429 (615)
T TIGR00990       353 DLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD  429 (615)
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            88888765  3455555556666677788888888888888776543 56778888888888999999999999998875


Q ss_pred             CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCch-h-
Q 043204          327 FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANG-E-  404 (504)
Q Consensus       327 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~-  404 (504)
                      +. +...+..+...+.+.|++++|+..|++.+...  +.+...++.+..++...|++++|.+.|++..+.   .|+. . 
T Consensus       430 P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~  503 (615)
T TIGR00990       430 PD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF--PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPM  503 (615)
T ss_pred             cc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccc
Confidence            33 56777788888999999999999999866543  345667888888999999999999999998754   2321 1 


Q ss_pred             ------hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          405 ------TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       405 ------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                            .++.....+...|++++|.+++++..+.. +.+...+..+...+.+.|++++|++.|++..+.
T Consensus       504 ~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       504 YMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             cccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence                  11222223444689999999999988764 233456888899999999999999999998854

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=2.5e-19  Score=173.32  Aligned_cols=296  Identities=13%  Similarity=0.049  Sum_probs=181.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .++..+.+.|++++|+.+++......|.   +...+..++.+....|++++|.+.|+++.+.. |.+...+..+...+..
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~p~---~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~  122 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTAKN---GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhCCC---chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            3456666778888888888888777665   56666666667777788888888888877766 5566677777777778


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      .|++++|...|+...+.. +.+...+..+...+...|++++|...++.+....+..++  .+..+ ..+...|++++|..
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~--a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD--MIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH--HHHHH-HHHHHcCCHHHHHH
Confidence            888888888888777654 233556677777777888888888777766544222222  22222 23667788888888


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH----HHHHH
Q 043204          173 VFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD----AMQIL  248 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~  248 (504)
                      .++.+.+....++...+..+..++...|++++|...++++    .... +.+...+..+...+...|++++    |...|
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~a----l~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~  273 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESA----LARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHW  273 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHH----HhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHH
Confidence            8777766533334444455556677778888888877777    3332 2246666777777777777764    67777


Q ss_pred             HHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043204          249 EKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  324 (504)
                      ++..+.  .|+.......+...+...|+++.|...++++....+. +...+..+...+.+.|++++|...|+.+..
T Consensus       274 ~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        274 RHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             HHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777664  3333333333344444444444444444444433222 222333333344444444444444444443

>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=99.90  E-value=4.7e-19  Score=172.19  Aligned_cols=427  Identities=11%  Similarity=-0.002  Sum_probs=294.7

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK  127 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (504)
                      +......+.+.|++++|+..|++..+.  .|+...|..+..+|.+.|++++|++.++...+.+. .+..++..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            446667788889999999999988876  46777888888889999999999999998887753 346678888888999


Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATH  207 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  207 (504)
                      .|++++|+.-|.......+..+..  ...++..+..    ..+........+.. +++...+..+.. +...........
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~--~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~  278 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ--SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPA  278 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH--HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchh
Confidence            999999988887665443332211  1112221111    12222222222221 122222322222 222111111111


Q ss_pred             HHHHHHHHHhhCCCCcC-HHHHHHHHHH---HHhcCchhHHHHHHHHHHHcC-CCCCcchhhhhhccccCCCCChHHHHH
Q 043204          208 LLYSMFWRISQKGSGED-IVIYRTLLFA---LCDQGKIQDAMQILEKILRKG-LKAPKSRRHRIDLCPCNDGEDIEGAKS  282 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~-~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~~  282 (504)
                      -+...    ..  ..+. ...+..+...   ....+++++|.+.|+.....+ ..|.....+..+..++...|+++.|..
T Consensus       279 ~~~~~----~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~  352 (615)
T TIGR00990       279 GLEDS----NE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALA  352 (615)
T ss_pred             hhhcc----cc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHH
Confidence            11111    00  1111 0111111111   123468999999999998865 345555666777788889999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          283 LINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                      .++..++..+. ....|..+...+...|++++|...|++..+.... +...+..+...+...|++++|...|++++... 
T Consensus       353 ~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-  429 (615)
T TIGR00990       353 DLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-  429 (615)
T ss_pred             HHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-
Confidence            99999987543 4567778888888999999999999999887533 67889999999999999999999999966553 


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCc-ch-
Q 043204          363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCV-ET-  440 (504)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~-  440 (504)
                       +.+...+..+..++.+.|++++|+..+++..+.  .+.+...++.+..++...|++++|.+.|++..+..  |+. .. 
T Consensus       430 -P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~--p~~~~~~  504 (615)
T TIGR00990       430 -PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE--KETKPMY  504 (615)
T ss_pred             -ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--Ccccccc
Confidence             345667888888999999999999999999864  33356788899999999999999999999998863  321 11 


Q ss_pred             ------HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          441 ------YNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI-SVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       441 ------~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                            ++.....+...|++++|.+++++..+.  .|+. ..+..+...+...|+ +++|.+++++..+
T Consensus       505 ~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~-~~eAi~~~e~A~~  570 (615)
T TIGR00990       505 MNVLPLINKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGD-VDEALKLFERAAE  570 (615)
T ss_pred             ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccC-HHHHHHHHHHHHH
Confidence                  112222334469999999999999864  4554 467777887777766 9999999998754

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.90  E-value=2e-18  Score=170.88  Aligned_cols=184  Identities=12%  Similarity=-0.022  Sum_probs=106.8

Q ss_pred             hcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHH
Q 043204          308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAV  387 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  387 (504)
                      ..|++++|...|+++...  +|+...+..+...+.+.|+.++|...+++.+...  +++...+..+.......|++++|.
T Consensus       521 ~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl  596 (987)
T PRK09782        521 QVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELAL  596 (987)
T ss_pred             HCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHH
Confidence            446666666666555433  2223334444555566666666666666533322  122222222333333447777777


Q ss_pred             HHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          388 MYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       388 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                      ..+++..+.   .|+...+..+..++.+.|+.++|...+++..+.. +.+...+..+..++...|++++|++.+++..+.
T Consensus       597 ~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        597 NDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            777776643   4556667777777777777777777777777653 234455566666777777777777777777753


Q ss_pred             CCCCC-HHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          468 AKLPD-ISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       468 ~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                        .|+ ...+..+..++...|+ +++|...+++..+
T Consensus       673 --~P~~~~a~~nLA~al~~lGd-~~eA~~~l~~Al~  705 (987)
T PRK09782        673 --LPDDPALIRQLAYVNQRLDD-MAATQHYARLVID  705 (987)
T ss_pred             --CCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHh
Confidence              344 3445555555444444 7777777777654

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

Probab=99.90  E-value=2.2e-20  Score=165.03  Aligned_cols=407  Identities=16%  Similarity=0.082  Sum_probs=325.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      ...+.+..+++.....-....+..|.   -..+|..+.+.+-..|++.+|+.+++.+.+.. +.....|..+..++...|
T Consensus        89 ~ai~~q~~r~d~s~a~~~~a~r~~~q---~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~  164 (966)
T KOG4626|consen   89 SAIFFQGSRLDKSSAGSLLAIRKNPQ---GAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQG  164 (966)
T ss_pred             hhhhhcccchhhhhhhhhhhhhccch---HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcC
Confidence            35566666777777666666666554   67789999999999999999999999999886 667788999999999999


Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHH
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVF  174 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  174 (504)
                      +.+.|.+.|.+..+.++.. ....+.+...+...|++++|...|.+..+..  +--...|..|...+-..|+.-.|+..|
T Consensus       165 ~~~~a~~~~~~alqlnP~l-~ca~s~lgnLlka~Grl~ea~~cYlkAi~~q--p~fAiawsnLg~~f~~~Gei~~aiq~y  241 (966)
T KOG4626|consen  165 DLELAVQCFFEALQLNPDL-YCARSDLGNLLKAEGRLEEAKACYLKAIETQ--PCFAIAWSNLGCVFNAQGEIWLAIQHY  241 (966)
T ss_pred             CCcccHHHHHHHHhcCcch-hhhhcchhHHHHhhcccchhHHHHHHHHhhC--CceeeeehhcchHHhhcchHHHHHHHH
Confidence            9999999999888765321 2234455666667789999988888776542  123567888888899999999999999


Q ss_pred             HHhhhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          175 QEMDFQGCYPD-RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       175 ~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      ++....  .|+ ...|..|-..|...+.+++|...|.+.    ..  ..| ....+..+...|...|+++-|+..+++.+
T Consensus       242 ~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rA----l~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral  313 (966)
T KOG4626|consen  242 EEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRA----LN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRAL  313 (966)
T ss_pred             HHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHH----Hh--cCCcchhhccceEEEEeccccHHHHHHHHHHHH
Confidence            998875  344 467888889999999999999998876    33  334 46778888888999999999999999988


Q ss_pred             HcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchh
Q 043204          253 RKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLV  332 (504)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  332 (504)
                      +.  .|.-...+..+..+....|++.+|...+...+..... .....+.+...+...|.+++|..+|....+-.+. -..
T Consensus       314 ~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aa  389 (966)
T KOG4626|consen  314 EL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAA  389 (966)
T ss_pred             hc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhh
Confidence            75  5666666777788888889999999999999877654 5667788899999999999999999998885322 346


Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHH
Q 043204          333 MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT-VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILV  410 (504)
Q Consensus       333 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~  410 (504)
                      .++.|...|-..|++++|+..|+++++   +.|+ ...|+.+...|-..|+.+.|.+.+.+...   +.|. ....+.|.
T Consensus       390 a~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~---~nPt~AeAhsNLa  463 (966)
T KOG4626|consen  390 AHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ---INPTFAEAHSNLA  463 (966)
T ss_pred             hhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh---cCcHHHHHHhhHH
Confidence            788999999999999999999998665   4565 45899999999999999999999999884   4665 35788899


Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHH
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGL  448 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~  448 (504)
                      ..|...|++.+|..-+++..+.  +|| +..|..++.++
T Consensus       464 si~kDsGni~~AI~sY~~aLkl--kPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  464 SIYKDSGNIPEAIQSYRTALKL--KPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHhhccCCcHHHHHHHHHHHcc--CCCCchhhhHHHHHH
Confidence            9999999999999999999985  466 34555555443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=5.8e-19  Score=170.80  Aligned_cols=361  Identities=14%  Similarity=0.098  Sum_probs=218.5

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      +.++.+|+.---.|....+....-..+..-...++..+.+.|++.+|..+++...... +-+...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHH
Confidence            3455666655555554444321111133345566677888899999999998888776 555566666667777889999


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHh
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEM  177 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  177 (504)
                      .|...|+.+.+..+ .+...+..+...+...|++++|...+++.....  +.+...+..+...+...|++++|...++.+
T Consensus        94 ~A~~~l~~~l~~~P-~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~--P~~~~a~~~la~~l~~~g~~~eA~~~~~~~  170 (656)
T PRK15174         94 AVLQVVNKLLAVNV-CQPEDVLLVASVLLKSKQYATVADLAEQAWLAF--SGNSQIFALHLRTLVLMDKELQAISLARTQ  170 (656)
T ss_pred             HHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            99999998887653 345677788888888999999999998887542  224566777888888899999999988887


Q ss_pred             hhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC
Q 043204          178 DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLK  257 (504)
Q Consensus       178 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  257 (504)
                      ...... +...+..+ ..+...|++++|...++.+    ......++...+..+..++...|++++|...++++.+..  
T Consensus       171 ~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~----l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~--  242 (656)
T PRK15174        171 AQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARAL----LPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG--  242 (656)
T ss_pred             HHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHH----HhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--
Confidence            665322 22233333 3477888999998888877    444333344455556677888888888888888887753  


Q ss_pred             CCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH----HHHHHHHHHHCCCCcchhh
Q 043204          258 APKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVE----GDKVLDEMRTKGFWPSLVM  333 (504)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~  333 (504)
                      |.+.                                   ..+..+...+...|++++    |...|++..+..+. +...
T Consensus       243 p~~~-----------------------------------~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a  286 (656)
T PRK15174        243 LDGA-----------------------------------ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRI  286 (656)
T ss_pred             CCCH-----------------------------------HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHH
Confidence            3333                                   333344444444455443    45555555443221 3444


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhh-HHHHHHH
Q 043204          334 YEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGET-YGILVDG  412 (504)
Q Consensus       334 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~-~~~l~~~  412 (504)
                      +..+...+...|++++|...+++++...  +.+...+..+..++.+.|++++|...++.+...   .|+... +..+..+
T Consensus       287 ~~~lg~~l~~~g~~~eA~~~l~~al~l~--P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~---~P~~~~~~~~~a~a  361 (656)
T PRK15174        287 VTLYADALIRTGQNEKAIPLLQQSLATH--PDLPYVRAMYARALRQVGQYTAASDEFVQLARE---KGVTSKWNRYAAAA  361 (656)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CccchHHHHHHHHH
Confidence            4455555555555555555555533322  122233444444555555555555555555432   222211 2223344


Q ss_pred             HhhcCcHHHHHHHHHHHHh
Q 043204          413 LCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~  431 (504)
                      +...|+.++|.+.|++..+
T Consensus       362 l~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        362 LLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            4555555555555555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.90  E-value=1.2e-18  Score=172.42  Aligned_cols=416  Identities=11%  Similarity=0.025  Sum_probs=239.2

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      ...-.+.+....|+.++|++++....... +.+...+..+...+...|++++|.++|+...+..+ .+...+..+...+.
T Consensus        17 ~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~l~   94 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP-QNDDYQRGLILTLA   94 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            33444445555555555555555555422 33444455555555555555555555555554431 22334445555555


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  206 (504)
                      ..|+.++|...++++....+.  +.. +..+..++...|+.++|+..++++.+.... +...+..+..++...+..+.|+
T Consensus        95 ~~g~~~eA~~~l~~~l~~~P~--~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049         95 DAGQYDEALVKAKQLVSGAPD--KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HCCCHHHHHHHHHHHHHhCCC--CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHH
Confidence            555555555555555543221  222 455555555556666666666655554211 2333344444555555555555


Q ss_pred             HHHHHHHHHHhhCCCCcCH------HHHHHHHHHHH-----hcCch---hHHHHHHHHHHHc-CCCCCcchhhh-h-h--
Q 043204          207 HLLYSMFWRISQKGSGEDI------VIYRTLLFALC-----DQGKI---QDAMQILEKILRK-GLKAPKSRRHR-I-D--  267 (504)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~g~~---~~a~~~~~~~~~~-~~~~~~~~~~~-~-~--  267 (504)
                      ..++..    ..   .|+.      .....++..+.     ..+++   ++|++.++.+.+. ...|....... . +  
T Consensus       171 ~~l~~~----~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~  243 (765)
T PRK10049        171 GAIDDA----NL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDR  243 (765)
T ss_pred             HHHHhC----CC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHH
Confidence            555443    11   1110      01111122111     11223   5566666666643 11222111100 0 0  


Q ss_pred             ccccCCCCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCc---chhhHHHHHHHHhc
Q 043204          268 LCPCNDGEDIEGAKSLINEALIRGGI-PSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWP---SLVMYEAKLAALFK  343 (504)
Q Consensus       268 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~  343 (504)
                      +..+...+++++|...|+.+.+.+.. |+. .-..+...+...|++++|+..|+++.+.....   .......+..++..
T Consensus       244 l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~  322 (765)
T PRK10049        244 LGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLE  322 (765)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHh
Confidence            11223446777777777777665432 322 12224567788899999999998887653221   12345566667888


Q ss_pred             CCCHHHHHHHHHHHHhcCC----------CCcc---HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHH
Q 043204          344 DGMVDEALEVIEEEMVKGT----------FVPT---VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILV  410 (504)
Q Consensus       344 ~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  410 (504)
                      .|++++|..+++.+.....          ..|+   ...+..+...+...|+.++|++.++++...  .+.+...+..+.
T Consensus       323 ~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA  400 (765)
T PRK10049        323 SENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYA  400 (765)
T ss_pred             cccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            8999999999887443321          1123   224456667788899999999999998864  344567788888


Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVAS  482 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  482 (504)
                      ..+...|++++|++.+++..+..  |+ ...+......+...|++++|..+++++.+.  .|+......+-+.
T Consensus       401 ~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~~  469 (765)
T PRK10049        401 SVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQRLARA  469 (765)
T ss_pred             HHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            89999999999999999988864  54 566666777888999999999999999953  5776655555444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.89  E-value=1.2e-17  Score=162.01  Aligned_cols=435  Identities=11%  Similarity=0.007  Sum_probs=250.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      .+-...+.|+++.|+..|+++.+..|.   +......++..+...|+.++|+..+++..... +.+......+...+...
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~~P~---~~~av~dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~  115 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKAGPL---QSGQVDDWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNE  115 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhCcc---chhhHHHHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHc
Confidence            345677899999999999999998775   32222288888888899999999999998322 33334445556788889


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      |++++|+++|+++.+..+.. ...+..++..+...++.++|+..++++...   .|+...+..++..+...++..+|++.
T Consensus       116 gdyd~Aiely~kaL~~dP~n-~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~---dp~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        116 KRWDQALALWQSSLKKDPTN-PDLISGMIMTQADAGRGGVVLKQATELAER---DPTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             CCHHHHHHHHHHHHhhCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHhccc---CcchHHHHHHHHHHHhcchHHHHHHH
Confidence            99999999999999887544 667778888899999999999999998765   44445554444444446666669999


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH------HHHHHHH---H--hcCc--
Q 043204          174 FQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY------RTLLFAL---C--DQGK--  240 (504)
Q Consensus       174 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~------~~l~~~~---~--~~g~--  240 (504)
                      ++++.+.. +-+...+..+..+..+.|-...|.++..+-    .+. ..+...-+      ..+++.-   .  ...+  
T Consensus       192 ~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~----p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        192 SSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKEN----PNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhC----ccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            99999874 225677788888889999888888776543    111 11111000      1111100   0  0111  


Q ss_pred             -hhHHHHHHHHHHHcCC-CCCcchh-hh---hhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 043204          241 -IQDAMQILEKILRKGL-KAPKSRR-HR---IDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVE  314 (504)
Q Consensus       241 -~~~a~~~~~~~~~~~~-~~~~~~~-~~---~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  314 (504)
                       .+.|+.-++.+...-. .|+.... ..   =.+.++...++..++.+.++.+...+......+-..+.++|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence             2334444444443211 1211111 11   1123334455556666666666555544334455555556665566666


Q ss_pred             HHHHHHHHHHCCC-----CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC------------CCccHH-HHHHHHHH
Q 043204          315 GDKVLDEMRTKGF-----WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT------------FVPTVR-VYNILLKG  376 (504)
Q Consensus       315 a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------~~~~~~-~~~~l~~~  376 (504)
                      |+.+|+.+.....     .++......|..+|...+++++|..+++++.....            ..||-. .+..++..
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            6666665544321     11222234555555666666666666665222111            001111 12233444


Q ss_pred             HHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHH
Q 043204          377 LCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYE  456 (504)
Q Consensus       377 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  456 (504)
                      +...|+..+|++.++++...  -+-|......+.+.+...|.+.+|.+.++...... +-+..+....+.++...|++.+
T Consensus       426 ~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~  502 (822)
T PRK14574        426 LVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQ  502 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHH
Confidence            55556666666666665442  23344555555555666666666666664444431 2233344444555555566666


Q ss_pred             HHHHHHHHH
Q 043204          457 AVMWLEEMI  465 (504)
Q Consensus       457 a~~~~~~~~  465 (504)
                      |..+.+.+.
T Consensus       503 A~~~~~~l~  511 (822)
T PRK14574        503 MELLTDDVI  511 (822)
T ss_pred             HHHHHHHHH
Confidence            666655555

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

Probab=99.89  E-value=1.3e-18  Score=161.81  Aligned_cols=472  Identities=13%  Similarity=0.028  Sum_probs=297.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC---ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN---RITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      ..+.+.|+.+.|+..|.++++.+|.   ++.++-.|.-.-....   .+..+..++...-... +.|+.+.+.|.+.|.-
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLdp~---~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyf  282 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLDPT---CVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYF  282 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcChh---hHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhh
Confidence            4455777778888888877777664   4444444433222222   2234444444443333 3444555555555555


Q ss_pred             cCChhHHHHHHHHhhhCCCC--ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCV--NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      .|+++.+..+...+......  .-...|--+.++|...|++++|...|.+.....+-. .+..+--|...|.+.|+.+.+
T Consensus       283 K~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~-~~l~~~GlgQm~i~~~dle~s  361 (1018)
T KOG2002|consen  283 KKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN-FVLPLVGLGQMYIKRGDLEES  361 (1018)
T ss_pred             cccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC-ccccccchhHHHHHhchHHHH
Confidence            55555555555544432211  112234445555555555555555554443221100 122223344444444444444


Q ss_pred             HHHHHHhhhCC-------------------------------------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043204          171 LHVFQEMDFQG-------------------------------------CYPDRESYHILMKGLCNDRRLNEATHLLYSMF  213 (504)
Q Consensus       171 ~~~~~~~~~~~-------------------------------------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  213 (504)
                      ...|+...+..                                     .+.|...|-.+...+.. ++...++..|..+.
T Consensus       362 ~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~-~d~~~sL~~~~~A~  440 (1018)
T KOG2002|consen  362 KFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQ-TDPWASLDAYGNAL  440 (1018)
T ss_pred             HHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHh-cChHHHHHHHHHHH
Confidence            44444443321                                     02234444444443333 33344466666665


Q ss_pred             HHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc---CCCCCc-----chhhhhhccccCCCCChHHHHHHHH
Q 043204          214 WRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK---GLKAPK-----SRRHRIDLCPCNDGEDIEGAKSLIN  285 (504)
Q Consensus       214 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~-----~~~~~~~~~~~~~~~~~~~a~~~~~  285 (504)
                      ..+...+..+.....|.+...+...|+++.|...|......   ...++.     .+....+..+....++.+.|.+.|.
T Consensus       441 d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk  520 (1018)
T KOG2002|consen  441 DILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYK  520 (1018)
T ss_pred             HHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            55666666778889999999999999999999999988765   111111     2233344566677788999999999


Q ss_pred             HHHHcCCCCChh-hHHHHHHHHHh-cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC
Q 043204          286 EALIRGGIPSLA-SYSAMAIDLYN-EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF  363 (504)
Q Consensus       286 ~~~~~~~~~~~~-~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  363 (504)
                      .+++..  |+-. .|-.+. +.++ .+...+|...+......+- .++..++.+...+.+...+..|.+-|.....+...
T Consensus       521 ~Ilkeh--p~YId~ylRl~-~ma~~k~~~~ea~~~lk~~l~~d~-~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~  596 (1018)
T KOG2002|consen  521 SILKEH--PGYIDAYLRLG-CMARDKNNLYEASLLLKDALNIDS-SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTST  596 (1018)
T ss_pred             HHHHHC--chhHHHHHHhh-HHHHhccCcHHHHHHHHHHHhccc-CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhcc
Confidence            998773  3333 233332 3333 3788889999988887542 36667777787888888888888877764444444


Q ss_pred             CccHHHHHHHHHHHHh------------cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          364 VPTVRVYNILLKGLCD------------AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       364 ~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      .+|..+..+|.+.|.+            .+..++|+++|.++.+.  .+.|...-|.+.-.++..|++.+|..||.+..+
T Consensus       597 ~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrE  674 (1018)
T KOG2002|consen  597 KTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVRE  674 (1018)
T ss_pred             CCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHH
Confidence            5677777777776643            24567788888888763  455778888899999999999999999999998


Q ss_pred             cCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 043204          432 RSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ-AKLPDISVWSSLVASVCCNTADLNVCRKTLEQLS  501 (504)
Q Consensus       432 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~  501 (504)
                      .. .-...+|-.+..+|...|+|..|+++|+...+. .-..+..+...|.+++...++ +.+|.+.+....
T Consensus       675 a~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~-~~eak~~ll~a~  743 (1018)
T KOG2002|consen  675 AT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGK-LQEAKEALLKAR  743 (1018)
T ss_pred             HH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhh-HHHHHHHHHHHH
Confidence            74 246678889999999999999999999988754 334567888889999999888 999998877654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=1.3e-18  Score=172.15  Aligned_cols=418  Identities=10%  Similarity=-0.025  Sum_probs=300.4

Q ss_pred             HHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC
Q 043204           66 EVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      ..++. ...+ +.++....-.+.+....|+.++|++++....... +.+...+..+...+.+.|++++|...+++.....
T Consensus         3 ~~~~~-~~~~-~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~   79 (765)
T PRK10049          3 SWLRQ-ALKS-ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE   79 (765)
T ss_pred             hhhhh-hhcc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            44555 3333 5566666677788889999999999999988644 3446678999999999999999999999987653


Q ss_pred             CCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCH
Q 043204          146 EVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDI  225 (504)
Q Consensus       146 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  225 (504)
                      +.  +...+..+...+...|++++|...+++..+.. +.+.. +..+..++...|+.++|+..++++    ...... +.
T Consensus        80 P~--~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~a----l~~~P~-~~  150 (765)
T PRK10049         80 PQ--NDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQA----LPRAPQ-TQ  150 (765)
T ss_pred             CC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHH----HHhCCC-CH
Confidence            32  34556788889999999999999999998873 23455 888888999999999999999998    444333 55


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCc-------c---hhhhhhccccCCCCCh---HHHHHHHHHHHHc-C
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPK-------S---RRHRIDLCPCNDGEDI---EGAKSLINEALIR-G  291 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~---~~~~~~~~~~~~~~~~---~~a~~~~~~~~~~-~  291 (504)
                      ..+..+..++...+..+.|++.++....   .|..       .   .....+.......+.+   +.|...++.+.+. .
T Consensus       151 ~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~  227 (765)
T PRK10049        151 QYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWH  227 (765)
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcc
Confidence            6666788888889999999998886553   1111       0   1111111112223334   7788888888854 2


Q ss_pred             CCCChh-hHH----HHHHHHHhcCChhHHHHHHHHHHHCCCC-cchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCc
Q 043204          292 GIPSLA-SYS----AMAIDLYNEGRIVEGDKVLDEMRTKGFW-PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP  365 (504)
Q Consensus       292 ~~~~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  365 (504)
                      ..|+.. .+.    ..+..+...|++++|+..|+.+.+.+.. |+. .-..+...|...|++++|+..|++++......+
T Consensus       228 ~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~  306 (765)
T PRK10049        228 DNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIA  306 (765)
T ss_pred             cCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCC
Confidence            233221 111    1134556779999999999999987632 322 222357789999999999999998554332221


Q ss_pred             --cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcC----------CCCc---hhhHHHHHHHHhhcCcHHHHHHHHHHHH
Q 043204          366 --TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVG----------CVAN---GETYGILVDGLCRDGRFLEASRVLEEML  430 (504)
Q Consensus       366 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  430 (504)
                        .......+..++...|++++|.++++.+.+...          -.|+   ...+..+...+...|+.++|.++++++.
T Consensus       307 ~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al  386 (765)
T PRK10049        307 DLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELA  386 (765)
T ss_pred             CCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence              134566677788999999999999999986411          1122   1244567788899999999999999998


Q ss_pred             hcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhcCCCchhHHHHHHHHhhcC
Q 043204          431 IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISV-WSSLVASVCCNTADLNVCRKTLEQLSSC  503 (504)
Q Consensus       431 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~ll~~~~~~~~~~~~a~~~~~~~~~~  503 (504)
                      ... +.+...+..+...+...|++++|++.+++..+  ..|+... +......+... +++++|..+++++++.
T Consensus       387 ~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~-~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        387 YNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDL-QEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHh-CCHHHHHHHHHHHHHh
Confidence            863 45677888899999999999999999999995  4577544 33444443444 4599999999998753

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.88  E-value=2.1e-17  Score=163.78  Aligned_cols=259  Identities=13%  Similarity=0.037  Sum_probs=185.9

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 043204          225 IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAI  304 (504)
Q Consensus       225 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  304 (504)
                      ...|..+..++.. ++.++|...+.+.....  |+.. ....+...+...|+++.|...++++....  |+...+..+..
T Consensus       477 ~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~-~~L~lA~al~~~Gr~eeAi~~~rka~~~~--p~~~a~~~la~  550 (987)
T PRK09782        477 AAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAW-QHRAVAYQAYQVEDYATALAAWQKISLHD--MSNEDLLAAAN  550 (987)
T ss_pred             HHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchH-HHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCcHHHHHHHH
Confidence            3444555555544 56667777777666543  3322 23333444568899999999999876542  33445566677


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChH
Q 043204          305 DLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSA  384 (504)
Q Consensus       305 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (504)
                      .+.+.|+.++|...+++..+.++. +...+..+.......|++++|...+++++..   .|+...+..+..++.+.|+++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~d  626 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVP  626 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHH
Confidence            788899999999999999987532 3333334444555679999999999996654   467788999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHH
Q 043204          385 VAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEM  464 (504)
Q Consensus       385 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  464 (504)
                      +|+..+++....  .+.+...+..+..++...|+.++|...+++..+.. +-+...+..+..++...|++++|+..+++.
T Consensus       627 eA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~A  703 (987)
T PRK09782        627 AAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLV  703 (987)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999999864  23345677888889999999999999999999864 345678889999999999999999999999


Q ss_pred             HHcCCCCCHHHHH-HHHHHHhcCCCchhHHHHHHHH
Q 043204          465 ISQAKLPDISVWS-SLVASVCCNTADLNVCRKTLEQ  499 (504)
Q Consensus       465 ~~~~~~p~~~~~~-~ll~~~~~~~~~~~~a~~~~~~  499 (504)
                      .+  ..|+..... ..-.. .....+++.+.+-+++
T Consensus       704 l~--l~P~~a~i~~~~g~~-~~~~~~~~~a~~~~~r  736 (987)
T PRK09782        704 ID--DIDNQALITPLTPEQ-NQQRFNFRRLHEEVGR  736 (987)
T ss_pred             Hh--cCCCCchhhhhhhHH-HHHHHHHHHHHHHHHH
Confidence            95  456653322 22222 2222236666655544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.85  E-value=3.5e-16  Score=132.69  Aligned_cols=380  Identities=13%  Similarity=0.064  Sum_probs=265.7

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043204          114 WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILM  193 (504)
Q Consensus       114 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  193 (504)
                      +..+|..+|.++++-...+.|.+++++..... .+.+..+||.+|.+-.-..    ..+++.+|....+.||..|+|+++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k-~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAK-GKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhh-heeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHH
Confidence            45788999999999999999999999887653 4557788898887654332    278889999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH-HHHHHHHHHHc-------CCCCCcchhhh
Q 043204          194 KGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD-AMQILEKILRK-------GLKAPKSRRHR  265 (504)
Q Consensus       194 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~-------~~~~~~~~~~~  265 (504)
                      ++..+.|+++.|..-+-++..++++.|+.|...+|..++..+++-++..+ +..++.++...       -..|++..++.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~  360 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQ  360 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHH
Confidence            99999999888777776666666999999999999999998888877643 55555555432       23456666666


Q ss_pred             hhccccCCCCChHHHHHHHHHHHHcC----CCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHH
Q 043204          266 IDLCPCNDGEDIEGAKSLINEALIRG----GIP---SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKL  338 (504)
Q Consensus       266 ~~~~~~~~~~~~~~a~~~~~~~~~~~----~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  338 (504)
                      -.+..|.+..|.+.|.++..-+....    +.|   ....|..+....++....+.....|+.|.-.-+-|+..+...++
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~l  440 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLL  440 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHH
Confidence            77888888888888888766554321    112   23456677788888899999999999998887888888888999


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC-Ch--H-----------HHHHHHHHHHHh----cCCC
Q 043204          339 AALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG-NS--A-----------VAVMYLKKMSKQ----VGCV  400 (504)
Q Consensus       339 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--~-----------~a~~~~~~~~~~----~~~~  400 (504)
                      ++..-.+.++-.-+++.+ +...|..-+...-..++..+++.. .+  .           -|..+++.....    ....
T Consensus       441 rA~~v~~~~e~ipRiw~D-~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~  519 (625)
T KOG4422|consen  441 RALDVANRLEVIPRIWKD-SKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQD  519 (625)
T ss_pred             HHHhhcCcchhHHHHHHH-HHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcc
Confidence            998888988888888887 665554444444444444444433 11  0           011122111110    0223


Q ss_pred             CchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC-cCCCcchHH---HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043204          401 ANGETYGILVDGLCRDGRFLEASRVLEEMLIRS-YWPCVETYN---VLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVW  476 (504)
Q Consensus       401 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~---~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  476 (504)
                      ......+.+.-.+.+.|+.++|.+++.-+.+.+ -.|-....+   -+++.-.+.+++..|..+++-|...++..-...-
T Consensus       520 ~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La  599 (625)
T KOG4422|consen  520 WPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPICEGLA  599 (625)
T ss_pred             CChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhhhHHH
Confidence            344566777778899999999999999986543 234444455   5666777889999999999999876543333344


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHh
Q 043204          477 SSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       477 ~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                      +-+... |..+..-.++.+-+..+
T Consensus       600 ~RI~e~-f~iNqeq~~~ls~l~~L  622 (625)
T KOG4422|consen  600 QRIMED-FAINQEQKEALSNLTAL  622 (625)
T ss_pred             HHHHHh-cCcCHHHHHHHhhhhhh
Confidence            555555 33333344555544433

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

Probab=99.84  E-value=1.8e-16  Score=147.80  Aligned_cols=449  Identities=12%  Similarity=0.038  Sum_probs=313.1

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc-HHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK-DSVFAT   85 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~   85 (504)
                      ++...+.|...|...|+++.+..+...+....-.-.--...|..+.+++-..|++++|...|....+.. +.+ ...+.-
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~-~d~~~l~~~G  347 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD-NDNFVLPLVG  347 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC-CCCccccccc
Confidence            445556677777777777777777777766521000112346677777777888888888777766654 222 233555


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc----hHHHHHHHHHHhhcCCCCcchHHHHHHHHHHH
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES----KLEAAHILFLRSCYGWEVKSRIQSLNLLMDVL  161 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  161 (504)
                      +...+++.|+++.+...|+.+.+.. +....+...|...|...+    ..+.|..++.+.....  +.|...|-.+...+
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~--~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT--PVDSEAWLELAQLL  424 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc--cccHHHHHHHHHHH
Confidence            6777778888888888888777654 333455556666666554    4566666666665442  34566666666665


Q ss_pred             hhcCCHHHHHHHHHHh----hhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHh-----hCCCCcCHHHHHHHH
Q 043204          162 CQCRRSDLALHVFQEM----DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRIS-----QKGSGEDIVIYRTLL  232 (504)
Q Consensus       162 ~~~~~~~~a~~~~~~~----~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~l~  232 (504)
                      ... +.-.++.+|...    ...+..+.+...|.+...+...|++..|...|........     +.|-.++..+-..+.
T Consensus       425 e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  425 EQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             Hhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            544 343346666544    3455568888999999999999999999999998854311     011122333444567


Q ss_pred             HHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 043204          233 FALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRI  312 (504)
Q Consensus       233 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  312 (504)
                      .+.-..++.+.|.+.|..+++.  .|.-...+.-++......++..+|...+......+-. ++..+..+...+.+...+
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~-np~arsl~G~~~l~k~~~  580 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS-NPNARSLLGNLHLKKSEW  580 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC-CcHHHHHHHHHHHhhhhh
Confidence            7777788999999999999986  3444444444555666778899999999998876543 555566565677777778


Q ss_pred             hHHHHHHHHHHHCC-CCcchhhHHHHHHHHhc------------CCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 043204          313 VEGDKVLDEMRTKG-FWPSLVMYEAKLAALFK------------DGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD  379 (504)
Q Consensus       313 ~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (504)
                      ..|..-|....+.- ..+|..+.-+|.+.|..            .+..++|+++|.+++...  +.|...-+.+.-.++.
T Consensus       581 ~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d--pkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  581 KPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND--PKNMYAANGIGIVLAE  658 (1018)
T ss_pred             cccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC--cchhhhccchhhhhhh
Confidence            88877666655432 22566666667665542            245678999998855554  5677777888888999


Q ss_pred             cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhc-CcCCCcchHHHHHHHHHccCCHHHHH
Q 043204          380 AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIR-SYWPCVETYNVLIRGLCSIGKQYEAV  458 (504)
Q Consensus       380 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~  458 (504)
                      .|++..|..+|.++.+.  ......+|-.+.++|+.+|++-.|.++|+...+. .-.-+..+...|.+++.+.|.+.+|.
T Consensus       659 kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak  736 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAK  736 (1018)
T ss_pred             ccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHH
Confidence            99999999999999886  2335567888999999999999999999987765 33456778889999999999999999


Q ss_pred             HHHHHHHHc
Q 043204          459 MWLEEMISQ  467 (504)
Q Consensus       459 ~~~~~~~~~  467 (504)
                      +.+......
T Consensus       737 ~~ll~a~~~  745 (1018)
T KOG2002|consen  737 EALLKARHL  745 (1018)
T ss_pred             HHHHHHHHh
Confidence            998888754

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=5.4e-15  Score=143.80  Aligned_cols=412  Identities=12%  Similarity=0.024  Sum_probs=297.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .++..+...|+.++|+..+++.....|   ........+...+...|++++|.++|+++.+.. +.++..+..++..+..
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~n---~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~  148 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSMN---ISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQAD  148 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhh
Confidence            778888899999999999999984322   133444444678889999999999999999987 6667788888999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      .++.++|++.++.+....  |+...+..++..+...++..+|+..++++....  +.+...+..++.++.+.|-...|.+
T Consensus       149 ~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~--P~n~e~~~~~~~~l~~~~~~~~a~~  224 (822)
T PRK14574        149 AGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA--PTSEEVLKNHLEILQRNRIVEPALR  224 (822)
T ss_pred             cCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            999999999999998775  344555455555555667766999999998763  2345566888889999999999998


Q ss_pred             HHHHhhhCCCCCCHhh------HHHHHHHH-----HhcCCH---HHHHHHHHHHHHHHhhCCCCcCH-H----HHHHHHH
Q 043204          173 VFQEMDFQGCYPDRES------YHILMKGL-----CNDRRL---NEATHLLYSMFWRISQKGSGEDI-V----IYRTLLF  233 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~------~~~l~~~~-----~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~-~----~~~~l~~  233 (504)
                      +..+-...- .+...-      ...+++.-     ...+++   +.|+.-++.+.   ...+..|.. .    ...-.+-
T Consensus       225 l~~~~p~~f-~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~---~~~~~~p~~~~~~~~~~~Drl~  300 (822)
T PRK14574        225 LAKENPNLV-SAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLL---TRWGKDPEAQADYQRARIDRLG  300 (822)
T ss_pred             HHHhCcccc-CHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHH---hhccCCCccchHHHHHHHHHHH
Confidence            877644221 111100      11111110     011223   44455555542   223333332 1    2233456


Q ss_pred             HHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCC-----CCChhhHHHHHHHHHh
Q 043204          234 ALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGG-----IPSLASYSAMAIDLYN  308 (504)
Q Consensus       234 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~  308 (504)
                      ++...|+..++++.|+.+...+.+.|.. ....+..++...+++++|..+++++.....     .++......|.-++..
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~~~~~P~y-~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld  379 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAEGYKMPDY-ARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNE  379 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhcCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHh
Confidence            7788999999999999999887654444 555568889999999999999999976542     1233335678888889


Q ss_pred             cCChhHHHHHHHHHHHCCC-----------Ccch---hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHH
Q 043204          309 EGRIVEGDKVLDEMRTKGF-----------WPSL---VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILL  374 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  374 (504)
                      .+++++|..+++.+.+..+           .|+.   ..+..++..+...|+..+|++.+++.....  +-|......+.
T Consensus       380 ~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a--P~n~~l~~~~A  457 (822)
T PRK14574        380 SEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA--PANQNLRIALA  457 (822)
T ss_pred             cccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            9999999999999998422           1221   223456777899999999999999954443  56788888999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHH
Q 043204          375 KGLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVL  444 (504)
Q Consensus       375 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  444 (504)
                      ..+...|.+.+|++.++....   +.|+ ..+....+.++...|++.+|.++.+...+..  |+......|
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~~---l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~--Pe~~~~~~l  523 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVES---LAPRSLILERAQAETAMALQEWHQMELLTDDVISRS--PEDIPSQEL  523 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHhh---hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC--CCchhHHHH
Confidence            999999999999999977664   3554 5667788889999999999999999999863  666544443

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

Probab=99.81  E-value=1.2e-15  Score=130.62  Aligned_cols=466  Identities=12%  Similarity=0.029  Sum_probs=298.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcH-HHHHHHHhccCChhHHHHHHHHhhcCCCCccH----HHHHHHHHHH
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVY-ASMIGILSESNRITEMKEVIDQMKGDSCECKD----SVFATAIRTY   90 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~   90 (504)
                      +-|....-..+|+..++-+.+.  .+-|+...+ -.+.+.+.+.+.+.+|++.++.....-...+.    .+.+.+.-.+
T Consensus       209 qqy~~ndm~~ealntyeiivkn--kmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtf  286 (840)
T KOG2003|consen  209 QQYEANDMTAEALNTYEIIVKN--KMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTF  286 (840)
T ss_pred             HHhhhhHHHHHHhhhhhhhhcc--cccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeE
Confidence            4444555667788888777765  455565544 34456777777888888877766544212222    2345555566


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCC-----------cchHHHHHHHH-
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEV-----------KSRIQSLNLLM-  158 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~~l~-  158 (504)
                      .+.|+++.|+..|+...+..  |+..+-..|+-.+..-|+-++..+.|.++..-++.           .|+....+.-+ 
T Consensus       287 iq~gqy~dainsfdh~m~~~--pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~  364 (840)
T KOG2003|consen  287 IQAGQYDDAINSFDHCMEEA--PNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIK  364 (840)
T ss_pred             EecccchhhHhhHHHHHHhC--ccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHh
Confidence            77788888888887766553  44444444555555667777777777777543221           22222222211 


Q ss_pred             ----HHHhhcC--CHHHHHHHHHHhhhCCCCCCHhh-------------HHH--------HHHHHHhcCCHHHHHHHHHH
Q 043204          159 ----DVLCQCR--RSDLALHVFQEMDFQGCYPDRES-------------YHI--------LMKGLCNDRRLNEATHLLYS  211 (504)
Q Consensus       159 ----~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~~-------------~~~--------l~~~~~~~~~~~~a~~~~~~  211 (504)
                          .-.-+.+  +.++++-.--++..--+.|+-..             +.-        -..-+.+.|+++.|.++++-
T Consensus       365 nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv  444 (840)
T KOG2003|consen  365 NDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKV  444 (840)
T ss_pred             hHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHH
Confidence                1111111  11222211122222112222110             000        11235788999999999886


Q ss_pred             HHHHHhhCCCCcCHHHHHHHHHHH-Hh-cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHH
Q 043204          212 MFWRISQKGSGEDIVIYRTLLFAL-CD-QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALI  289 (504)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~l~~~~-~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  289 (504)
                      .    .+...+.-...-+.|...+ .+ -.++..|..+-+..+....  -+......-.......|+++.|.+.+++.+.
T Consensus       445 ~----~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr--yn~~a~~nkgn~~f~ngd~dka~~~ykeal~  518 (840)
T KOG2003|consen  445 F----EKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR--YNAAALTNKGNIAFANGDLDKAAEFYKEALN  518 (840)
T ss_pred             H----HhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc--cCHHHhhcCCceeeecCcHHHHHHHHHHHHc
Confidence            6    3333332222333333222 22 3357777777776655422  2233333335566678999999999999987


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHH
Q 043204          290 RGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV  369 (504)
Q Consensus       290 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  369 (504)
                      ....-....||.- ..+-..|++++|+..|-++..- +..+..+...+.+.|....+...|++++-+ .. .-++.|+..
T Consensus       519 ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q-~~-slip~dp~i  594 (840)
T KOG2003|consen  519 NDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ-AN-SLIPNDPAI  594 (840)
T ss_pred             CchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH-hc-ccCCCCHHH
Confidence            6333223334332 2455669999999999887653 123677788888999999999999999865 22 235668889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHH-
Q 043204          370 YNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGL-  448 (504)
Q Consensus       370 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-  448 (504)
                      ...|...|-+.|+-..|.+.+-.--+  -++.+..+...|..-|....-+++|..+|++..-  ++|+..-|..++..| 
T Consensus       595 lskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~  670 (840)
T KOG2003|consen  595 LSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCF  670 (840)
T ss_pred             HHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHH
Confidence            99999999999999999987766443  3566788999999999999999999999998765  579999999998765 


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          449 CSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       449 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      .+.|++.+|+++++..... ++-|...+.-|++. |-.-| +.++.++.+++.+
T Consensus       671 rrsgnyqka~d~yk~~hrk-fpedldclkflvri-~~dlg-l~d~key~~klek  721 (840)
T KOG2003|consen  671 RRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRI-AGDLG-LKDAKEYADKLEK  721 (840)
T ss_pred             HhcccHHHHHHHHHHHHHh-CccchHHHHHHHHH-hcccc-chhHHHHHHHHHH
Confidence            5689999999999999864 66677777777775 77677 7788877766643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=1.5e-14  Score=122.91  Aligned_cols=236  Identities=15%  Similarity=0.121  Sum_probs=109.2

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      .++..+|..+++-...+.|.+++.+....  ..+.+..+||.+|.+-.-..    ..+++.+|....+.||..|+|+++.
T Consensus       208 et~s~mI~Gl~K~~~~ERA~~L~kE~~~~--k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  208 ETVSIMIAGLCKFSSLERARELYKEHRAA--KGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHh--hheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHH
Confidence            44555555555555555555555555544  33445555555554432221    1445555555555555555555555


Q ss_pred             HHHhcCChhH----HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHH-HHHHHHHHhhc-------CCCCcchHHHHHH
Q 043204           89 TYARAGQLNE----AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLE-AAHILFLRSCY-------GWEVKSRIQSLNL  156 (504)
Q Consensus        89 ~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~-------~~~~~~~~~~~~~  156 (504)
                      +..+.|+++.    |.+++.+|++.|+.|...+|..+|..+.+.++.. .+..++.++..       .+..+.|..-|..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            5555554433    3344445555555555555555555555544432 22233322221       0111122333444


Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhC----CCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQ----GCYPDR---ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      .+..|.+..|.+.|.++-.-+...    -+.|+.   .-|..+..+.+.....+....+|+.|    .-.-.-|+..+..
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~l----VP~~y~p~~~~m~  437 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDL----VPSAYFPHSQTMI  437 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----ccceecCCchhHH
Confidence            455555555555555544333221    011221   12333444444455555555555555    3444444555555


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .++++..-.|.++-.-+++.++...
T Consensus       438 ~~lrA~~v~~~~e~ipRiw~D~~~~  462 (625)
T KOG4422|consen  438 HLLRALDVANRLEVIPRIWKDSKEY  462 (625)
T ss_pred             HHHHHHhhcCcchhHHHHHHHHHHh
Confidence            5555555555555555555554443

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

Probab=99.78  E-value=8.8e-14  Score=129.24  Aligned_cols=186  Identities=14%  Similarity=0.068  Sum_probs=98.8

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAV  100 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (504)
                      .|+.++|.+++.++.+..|.   +...|.+|...|-+.|+.+++...+-...... |.|...|..+.....+.|+++.|.
T Consensus       152 rg~~eeA~~i~~EvIkqdp~---~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPR---NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCcc---chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHH
Confidence            46666666666666666554   55566666666666666666665554444443 444455666666666666666666


Q ss_pred             HHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHH----HHHHHHHHHhhcCCHHHHHHHHHH
Q 043204          101 SLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQ----SLNLLMDVLCQCRRSDLALHVFQE  176 (504)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~  176 (504)
                      -.|.+..+.++...... -.-...|-+.|+...|...|.++....+ +.|..    .-...+..+...++.+.|.+.++.
T Consensus       228 ~cy~rAI~~~p~n~~~~-~ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  228 YCYSRAIQANPSNWELI-YERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHhcCCcchHHH-HHHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            66666666553332222 2334455566666666666666554322 11111    112223344445555666665555


Q ss_pred             hhhC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          177 MDFQ-GCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       177 ~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      .... +-..+...+++++..+.+...++.+......+
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~  342 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDD  342 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHH
Confidence            5442 22334455566666666666666665555554

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

Probab=99.77  E-value=2e-13  Score=117.72  Aligned_cols=426  Identities=12%  Similarity=0.073  Sum_probs=274.2

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH-HHHHHHHHHHHhcCChhH
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD-SVFATAIRTYARAGQLNE   98 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~   98 (504)
                      .+++.+.|..+|++++..+   ..+...|...+.+-.++.++..|..++++....-  |.+ ..|.-.+..--..|++..
T Consensus        85 sq~e~~RARSv~ERALdvd---~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l--PRVdqlWyKY~ymEE~LgNi~g  159 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD---YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL--PRVDQLWYKYIYMEEMLGNIAG  159 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc---cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc--chHHHHHHHHHHHHHHhcccHH
Confidence            4677888999999999863   3477888888898899999999999999988763  443 346666666667899999


Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204           99 AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      |.++|+...+.  .|+...|.+.|+.-.+.+.++.|..++++...   .+|++.+|--....-.+.|+...|..+|+...
T Consensus       160 aRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  160 ARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            99999988764  68889999999999999999999999999874   46899988888888888999999999998877


Q ss_pred             hCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC-----------------------------------
Q 043204          179 FQGCYPDRE----SYHILMKGLCNDRRLNEATHLLYSMFWRISQK-----------------------------------  219 (504)
Q Consensus       179 ~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------------------  219 (504)
                      +.  --|..    .+.+...--.++..++.|.-+|+-.++.+.+.                                   
T Consensus       235 e~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE  312 (677)
T KOG1915|consen  235 EF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYE  312 (677)
T ss_pred             HH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHH
Confidence            64  11222    23333332234556666666665542211110                                   


Q ss_pred             ----CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcc-hh----hhhhccc----cCCCCChHHHHHHHHH
Q 043204          220 ----GSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKS-RR----HRIDLCP----CNDGEDIEGAKSLINE  286 (504)
Q Consensus       220 ----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~----~~~~~~~----~~~~~~~~~a~~~~~~  286 (504)
                          ..+-|-.+|--.++.-...|+.+...++|+..+.. ++|... .+    ..+-+..    -....|++.+.++++.
T Consensus       313 ~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~  391 (677)
T KOG1915|consen  313 KEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQA  391 (677)
T ss_pred             HHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence                11224445555555555666777777777776654 222111 00    0000111    1344666677777766


Q ss_pred             HHHcCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          287 ALIRGGIPSLASYSAMAIDLYN----EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       287 ~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                      .++. +.....||..+-..|++    ..++..|.+++...+.  .-|...+|...|..-.+.++++.+..+|++.+. .+
T Consensus       392 ~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle-~~  467 (677)
T KOG1915|consen  392 CLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLE-FS  467 (677)
T ss_pred             HHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh-cC
Confidence            6652 22244555544444433    3666677776665553  345666677777766777777777777777333 32


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHH
Q 043204          363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYN  442 (504)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  442 (504)
                       +-+..+|......-...|+.+.|..+|+-..++..+......|.+.|+.-...|.++.|..+++++.+..  +...+|-
T Consensus       468 -Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt--~h~kvWi  544 (677)
T KOG1915|consen  468 -PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT--QHVKVWI  544 (677)
T ss_pred             -hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc--ccchHHH
Confidence             3455666666666666777777777777777663334444566666666667777777777777777653  4444555


Q ss_pred             HHHHHHH-----ccC-----------CHHHHHHHHHHHH
Q 043204          443 VLIRGLC-----SIG-----------KQYEAVMWLEEMI  465 (504)
Q Consensus       443 ~l~~~~~-----~~g-----------~~~~a~~~~~~~~  465 (504)
                      ++..--.     ..|           ....|..+|++..
T Consensus       545 sFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  545 SFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             hHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            5443222     223           4556666666654

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

Probab=99.76  E-value=1.5e-13  Score=127.73  Aligned_cols=306  Identities=15%  Similarity=0.141  Sum_probs=222.0

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      ....|-.|...|-.+|+.++++..+-.+...+|+   |...|-.+.....+.|+++.|.-+|.+.++.. |++....-.-
T Consensus       172 ~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~---d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~er  247 (895)
T KOG2076|consen  172 NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK---DYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYER  247 (895)
T ss_pred             chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC---ChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHH
Confidence            3456888999999999999999999999988887   88899999999999999999999999999987 6666666677


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH----HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHh
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL----LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLC  162 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  162 (504)
                      ...|-+.|+...|...|.++.+...+.+..-+..+    +..+...++-+.|.+.++......+-..+...++.++..+.
T Consensus       248 s~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l  327 (895)
T KOG2076|consen  248 SSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFL  327 (895)
T ss_pred             HHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHH
Confidence            88899999999999999999988764444444444    44455667778888888887764334444556677888888


Q ss_pred             hcCCHHHHHHHHHHhhhCC---------------------------CCCC------------------------------
Q 043204          163 QCRRSDLALHVFQEMDFQG---------------------------CYPD------------------------------  185 (504)
Q Consensus       163 ~~~~~~~a~~~~~~~~~~~---------------------------~~p~------------------------------  185 (504)
                      +...++.+......+....                           +.++                              
T Consensus       328 ~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n  407 (895)
T KOG2076|consen  328 KNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDN  407 (895)
T ss_pred             HhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhc
Confidence            8888888877766655411                           1111                              


Q ss_pred             ------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCC
Q 043204          186 ------RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAP  259 (504)
Q Consensus       186 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  259 (504)
                            ...|.-+..++...|++..|+.+|..+    ......-+...|-.+..+|...|..+.|.+.|+.++..  .|+
T Consensus       408 ~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i----~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~  481 (895)
T KOG2076|consen  408 VWVSDDVDLYLDLADALTNIGKYKEALRLLSPI----TNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APD  481 (895)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH----hcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCC
Confidence                  122344455667778888888888777    44444446778888888888888888888888888775  567


Q ss_pred             cchhhhhhccccCCCCChHHHHHHHHHHHH--------cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 043204          260 KSRRHRIDLCPCNDGEDIEGAKSLINEALI--------RGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEM  322 (504)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  322 (504)
                      +......+..++...|+.++|.+.+..+..        .+..|+..........+.+.|+.++-+.+...|
T Consensus       482 ~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~L  552 (895)
T KOG2076|consen  482 NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTL  552 (895)
T ss_pred             chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            777777778888888888888888877542        223333444444445555566666554444443

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

Probab=99.76  E-value=2.3e-15  Score=128.82  Aligned_cols=439  Identities=12%  Similarity=0.065  Sum_probs=300.6

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH-HHHHHHHHhcCChhHHHHHHHHhhhCCCCcc----HHHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF-ATAIRTYARAGQLNEAVSLFKNLSQFNCVNW----TQSFNTLL  122 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll  122 (504)
                      +..|..-|..+.-..+|+..++-+.+..+-|+.-.. ..+...+.+.+.+.+|++.|......-+..+    ....+.+.
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            444556666677778999999999988877877653 4456778889999999999987765432222    33456666


Q ss_pred             HHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC------------CHhhHH
Q 043204          123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP------------DRESYH  190 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p------------~~~~~~  190 (504)
                      -.+.+.|.++.|+..|+...+.   .|+..+--.|+-++..-|+.++..+.|.+|..--..|            +....+
T Consensus       284 vtfiq~gqy~dainsfdh~m~~---~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEE---APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHh---CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            6788999999999999998754   5676665666667777899999999999998743222            322333


Q ss_pred             HHHH-----HHHhcC--CHHHHHHHHHHHHHHHhhCCCCcCHHH-------------HH--------HHHHHHHhcCchh
Q 043204          191 ILMK-----GLCNDR--RLNEATHLLYSMFWRISQKGSGEDIVI-------------YR--------TLLFALCDQGKIQ  242 (504)
Q Consensus       191 ~l~~-----~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~-------------~~--------~l~~~~~~~g~~~  242 (504)
                      ..|.     -..+.+  +-+++.-.--++    ...-+.|+...             +.        .-..-+.+.|+++
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~ki----iapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~  436 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKI----IAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIE  436 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHH----hccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHH
Confidence            2222     111111  112222221122    22223333110             11        1123477899999


Q ss_pred             HHHHHHHHHHHcCCCCCcchhhhh-hccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 043204          243 DAMQILEKILRKGLKAPKSRRHRI-DLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDE  321 (504)
Q Consensus       243 ~a~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  321 (504)
                      .|.++++-..+..-...+.....+ .+.+.....++..|...-+..+..... +......-.......|++++|...|++
T Consensus       437 ~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dry-n~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  437 GAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRY-NAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccccc-CHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            999999988776544333322222 233344556777777777666543221 222222222333445999999999999


Q ss_pred             HHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC
Q 043204          322 MRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA  401 (504)
Q Consensus       322 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  401 (504)
                      .......-....|+ +.-.+-..|++++|++.|-+ +.. -+..+......+...|-...++..|++++-+...  -++.
T Consensus       516 al~ndasc~ealfn-iglt~e~~~~ldeald~f~k-lh~-il~nn~evl~qianiye~led~aqaie~~~q~~s--lip~  590 (840)
T KOG2003|consen  516 ALNNDASCTEALFN-IGLTAEALGNLDEALDCFLK-LHA-ILLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPN  590 (840)
T ss_pred             HHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHH-HHH-HHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCC
Confidence            98863222222222 23346778999999999876 321 1244666777888899999999999999988764  3555


Q ss_pred             chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 043204          402 NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA  481 (504)
Q Consensus       402 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  481 (504)
                      |+.+.+-|.+.|-+.|+-..|.+..-+--. -++-+..+..-|...|....-+++++.+|++..  -+.|+..-|..++.
T Consensus       591 dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmia  667 (840)
T KOG2003|consen  591 DPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIA  667 (840)
T ss_pred             CHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHH
Confidence            778899999999999999999988765544 256788888889989999999999999999987  57899999999999


Q ss_pred             HHhcCCCchhHHHHHHHHhhc
Q 043204          482 SVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       482 ~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      .|.+..|++..|.++++...+
T Consensus       668 sc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  668 SCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHhcccHHHHHHHHHHHHH
Confidence            988888889999999987654

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

Probab=99.75  E-value=1.3e-12  Score=117.22  Aligned_cols=460  Identities=13%  Similarity=0.103  Sum_probs=310.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHH----hhcCCCCccHHHHHHHHH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQ----MKGDSCECKDSVFATAIR   88 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~l~~   88 (504)
                      .|.-+|++..-++.|..+++++.+..|.   +...|.+-...--++|+.+...+++.+    +...|+..+...|..=..
T Consensus       411 dLwlAlarLetYenAkkvLNkaRe~ipt---d~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe  487 (913)
T KOG0495|consen  411 DLWLALARLETYENAKKVLNKAREIIPT---DREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAE  487 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHH
Confidence            3556677777788888888888887665   777777777666777888888777655    445677778888877777


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCc--cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVN--WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      .|-..|..-.+..+....+..|+.-  ...||..-...|.+.+.++-|..+|....+-  .+-+...|......--..|.
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt  565 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGT  565 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCc
Confidence            7877788777777777777666543  2346777777888888888888888777654  23345566666655556688


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      .++...+|++....- +-....|-...+-+-..|++..|..++..++    +.... +...|-.-+..-..+.+++.|..
T Consensus       566 ~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af----~~~pn-seeiwlaavKle~en~e~eraR~  639 (913)
T KOG0495|consen  566 RESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAF----EANPN-SEEIWLAAVKLEFENDELERARD  639 (913)
T ss_pred             HHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHH----HhCCC-cHHHHHHHHHHhhccccHHHHHH
Confidence            888888888887762 2234455555666667788888888888774    33222 66777777788888888888888


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLA-SYSAMAIDLYNEGRIVEGDKVLDEMRTK  325 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~  325 (504)
                      +|.+....+   ++...+.--+.+-.-.+..++|.+++++.++.  .|+-. .|..+...+-+.++.+.|...|..-.+.
T Consensus       640 llakar~~s---gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~  714 (913)
T KOG0495|consen  640 LLAKARSIS---GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK  714 (913)
T ss_pred             HHHHHhccC---CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc
Confidence            888876642   22222222244445567788888888877765  34433 3444444455557777777777655543


Q ss_pred             CCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhh
Q 043204          326 GFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGET  405 (504)
Q Consensus       326 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~  405 (504)
                       ++-.+..|-.|...--+.|.+-+|..++++...++  +.+...|...|+.-.+.|+.+.|..+..+..+.  ++.+...
T Consensus       715 -cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN--Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~L  789 (913)
T KOG0495|consen  715 -CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN--PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLL  789 (913)
T ss_pred             -CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC--CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchh
Confidence             33355667777777777788888888888755544  456778888888888888888888888887763  4555666


Q ss_pred             HHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHh
Q 043204          406 YGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI-SVWSSLVASVC  484 (504)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~~~  484 (504)
                      |..-|....+.++-......++   +  ...|+++.-.+...|-...++++|.+.|.+.++.  .||. .+|.-+..-+.
T Consensus       790 WaEaI~le~~~~rkTks~DALk---k--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~--d~d~GD~wa~fykfel  862 (913)
T KOG0495|consen  790 WAEAIWLEPRPQRKTKSIDALK---K--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK--DPDNGDAWAWFYKFEL  862 (913)
T ss_pred             HHHHHHhccCcccchHHHHHHH---h--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc--CCccchHHHHHHHHHH
Confidence            7776666666655443333332   2  2356677777777777778888888888888843  4554 56666666555


Q ss_pred             cCCCchhHHHHHHHHhh
Q 043204          485 CNTADLNVCRKTLEQLS  501 (504)
Q Consensus       485 ~~~~~~~~a~~~~~~~~  501 (504)
                      +.|. -++-.+++.+..
T Consensus       863 ~hG~-eed~kev~~~c~  878 (913)
T KOG0495|consen  863 RHGT-EEDQKEVLKKCE  878 (913)
T ss_pred             HhCC-HHHHHHHHHHHh
Confidence            5554 555555555443

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

Probab=99.74  E-value=1.2e-12  Score=113.12  Aligned_cols=441  Identities=11%  Similarity=0.020  Sum_probs=318.9

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...|-....--..++++..|..+|++.+..+ ..+...|.-.+.+-.++..+..|..+++.....=+..| ..|-..+-+
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ym  150 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHH
Confidence            3344444444456778889999999999877 66777788889999999999999999999877544443 344455555


Q ss_pred             HHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043204          125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNE  204 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  204 (504)
                      --..|++..|.++|++-.   ...|+...|++.|..-.+-+.++.|..++++..-.  .|+..+|-.-.+.-.+.|+...
T Consensus       151 EE~LgNi~gaRqiferW~---~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWM---EWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHhcccHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHH
Confidence            566799999999999987   36889999999999999999999999999999875  6999999988888889999999


Q ss_pred             HHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH-
Q 043204          205 ATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL-  283 (504)
Q Consensus       205 a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~-  283 (504)
                      +..+|+...+.+.+.  ..+...+.+....=.++..++.|.-+|+-.+..-........+.-....-..-||....... 
T Consensus       226 aR~VyerAie~~~~d--~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~I  303 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDD--EEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAI  303 (677)
T ss_pred             HHHHHHHHHHHhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHH
Confidence            999999885332221  11234455555555566788999999998887632222233333333333344444443333 


Q ss_pred             -------HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcch--hhHHHHH----H-H---HhcCCC
Q 043204          284 -------INEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSL--VMYEAKL----A-A---LFKDGM  346 (504)
Q Consensus       284 -------~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~----~-~---~~~~~~  346 (504)
                             ++..++.++. |-.+|-..+..--..|+.+...++|++.+.. ++|-.  ..|.-.|    + +   -....+
T Consensus       304 v~KRk~qYE~~v~~np~-nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed  381 (677)
T KOG1915|consen  304 VGKRKFQYEKEVSKNPY-NYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAED  381 (677)
T ss_pred             hhhhhhHHHHHHHhCCC-CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence                   3444444433 6667777777777779999999999999875 44422  1222111    1 1   235788


Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHH----HHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHH
Q 043204          347 VDEALEVIEEEMVKGTFVPTVRVYNILL----KGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEA  422 (504)
Q Consensus       347 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  422 (504)
                      .+.+.++|+..+.  -++-..+||.-+=    ..-.++.+...|.+++....   |..|...+|...|..-.+.++++..
T Consensus       382 ~ertr~vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRc  456 (677)
T KOG1915|consen  382 VERTRQVYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRC  456 (677)
T ss_pred             HHHHHHHHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHH
Confidence            9999999997444  2444555555433    33447889999999999987   7899999999999999999999999


Q ss_pred             HHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 043204          423 SRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAK-LPDISVWSSLVASVCCNTADLNVCRKTLEQLS  501 (504)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~  501 (504)
                      .+++++..+.+ +-|-.+|......=...|+.+.|..+|+-..+... ......|.+.|.- -...+..+.|..++++++
T Consensus       457 RkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdF-Ei~~~E~ekaR~LYerlL  534 (677)
T KOG1915|consen  457 RKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDF-EIEEGEFEKARALYERLL  534 (677)
T ss_pred             HHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhh-hhhcchHHHHHHHHHHHH
Confidence            99999999975 44677788887777788999999999999986532 2334566777764 344445999999999987


Q ss_pred             cC
Q 043204          502 SC  503 (504)
Q Consensus       502 ~~  503 (504)
                      +.
T Consensus       535 ~r  536 (677)
T KOG1915|consen  535 DR  536 (677)
T ss_pred             Hh
Confidence            64

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

Probab=99.71  E-value=7e-12  Score=112.69  Aligned_cols=450  Identities=10%  Similarity=0.035  Sum_probs=352.8

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcC--CCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc--HHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKY--PNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK--DSVF   83 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~   83 (504)
                      +..|..-...=-.+|+.+....+.++.....  .|+..+...|..=...|-..|..-.+..+....+..|+...  ..+|
T Consensus       440 ~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw  519 (913)
T KOG0495|consen  440 REIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTW  519 (913)
T ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHH
Confidence            3445444444557889999999888776541  27777888888888899999999999999999988876543  3679


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      ..-...|.+.+.++-|..+|....+-. +.+...|......--..|..+....+|+++...-  +-....|-.....+-.
T Consensus       520 ~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~--pkae~lwlM~ake~w~  596 (913)
T KOG0495|consen  520 LDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC--PKAEILWLMYAKEKWK  596 (913)
T ss_pred             hhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHh
Confidence            999999999999999999999988754 3446677777777777899999999999998652  3344556666677778


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH
Q 043204          164 CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD  243 (504)
Q Consensus       164 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  243 (504)
                      .|++..|..++...-+.... +...|-.-+..-..+.+++.|..+|.+.    ..  ..|+...|..-+..---.+..++
T Consensus       597 agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llaka----r~--~sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKA----RS--ISGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHH----hc--cCCcchhhHHHhHHHHHhhhHHH
Confidence            89999999999999887533 6778888889999999999999999977    33  55667777766666667789999


Q ss_pred             HHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 043204          244 AMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMR  323 (504)
Q Consensus       244 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  323 (504)
                      |.+++++.++.  -|+-...+..+.+.+...++++.|...|..-.+.-+. .+..|-.+...--+.|.+..|..+++..+
T Consensus       670 A~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~-~ipLWllLakleEk~~~~~rAR~ildrar  746 (913)
T KOG0495|consen  670 ALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPN-SIPLWLLLAKLEEKDGQLVRARSILDRAR  746 (913)
T ss_pred             HHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCC-CchHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            99999999886  4677777888888899999999999888776654222 34555555555555689999999999999


Q ss_pred             HCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCch
Q 043204          324 TKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANG  403 (504)
Q Consensus       324 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~  403 (504)
                      -+++. +...|-..|++-.+.|+.+.|..+..+++++.  +.+...|..-|....+.++-......+++.      .-|+
T Consensus       747 lkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQec--p~sg~LWaEaI~le~~~~rkTks~DALkkc------e~dp  817 (913)
T KOG0495|consen  747 LKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQEC--PSSGLLWAEAIWLEPRPQRKTKSIDALKKC------EHDP  817 (913)
T ss_pred             hcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccchhHHHHHHhccCcccchHHHHHHHhc------cCCc
Confidence            88766 88899999999999999999999999877765  556667887777777777655555555543      3466


Q ss_pred             hhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHH
Q 043204          404 ETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI-SVWSSLVAS  482 (504)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~  482 (504)
                      ...-++...+.....++.|.+.|.+..+.+ +-+-.+|.-+...+.++|.-+.-.+++.+....  .|.. ..|.++-..
T Consensus       818 hVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~avSK~  894 (913)
T KOG0495|consen  818 HVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAVSKD  894 (913)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHHhhh
Confidence            777888888999999999999999999875 344678888889999999999999999988743  4554 445554443

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

Probab=99.70  E-value=3.5e-16  Score=136.75  Aligned_cols=263  Identities=16%  Similarity=0.108  Sum_probs=108.1

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+...+.+.|++++|.+++++......+|.+..+...+...+...++.+.|...++.+...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            4466666777777777777554444324555666666666777777777777777777765444 55566666665 677


Q ss_pred             CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHH
Q 043204          310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMY  389 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  389 (504)
                      +++++|..++....+..  ++...+...+..+...++++++.++++........+++...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999888776543  4666778888889999999999999998555444556777888888899999999999999


Q ss_pred             HHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 043204          390 LKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQA  468 (504)
Q Consensus       390 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  468 (504)
                      +++..+.   .| |......++..+...|+.+++.++++...+.. +.|+..|..+..+|...|++++|+.++++..+..
T Consensus       169 ~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  169 YRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            9999875   45 46678889999999999999999998888764 5677788889999999999999999999988652


Q ss_pred             CCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          469 KLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       469 ~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                       +.|+.....+..++...|. .++|.++.+++.+
T Consensus       245 -p~d~~~~~~~a~~l~~~g~-~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 -PDDPLWLLAYADALEQAGR-KDEALRLRRQALR  276 (280)
T ss_dssp             -TT-HHHHHHHHHHHT------------------
T ss_pred             -ccccccccccccccccccc-ccccccccccccc
Confidence             3356666777777666666 9999998887654

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

Probab=99.69  E-value=2.5e-16  Score=137.63  Aligned_cols=228  Identities=17%  Similarity=0.178  Sum_probs=89.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcC--CCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKY--PNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      .+...+.+.|++++|+++++......  |+   +...|..+...+...++++.|.+.++++...+ +-++..+..++.. 
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~---~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-   87 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPD---DPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-   87 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccc---cccccccccccccccccccccccccccccccc-ccccccccccccc-
Confidence            45677778888888888886554432  22   55555566666777788888888888888776 4456667777777 


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ...+++++|.+++....+..  ++...+..++..+.+.++++++..+++.+......+++...|..+...+.+.|+.++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            67888888888887765543  3445566777788888888888888888776555556777788888888888888888


Q ss_pred             HHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          171 LHVFQEMDFQGCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       171 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      ++.+++..+.  .| |....+.++..+...|+.+++.++++..    .... +.|...+..+..+|...|+.++|..+|+
T Consensus       166 ~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~----~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~  238 (280)
T PF13429_consen  166 LRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRL----LKAA-PDDPDLWDALAAAYLQLGRYEEALEYLE  238 (280)
T ss_dssp             HHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHH----HHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHH----HHHC-cCHHHHHHHHHHHhcccccccccccccc
Confidence            8888888876  34 4667778888888888888888877776    3322 3345567778888888888888888888


Q ss_pred             HHHHc
Q 043204          250 KILRK  254 (504)
Q Consensus       250 ~~~~~  254 (504)
                      +..+.
T Consensus       239 ~~~~~  243 (280)
T PF13429_consen  239 KALKL  243 (280)
T ss_dssp             HHHHH
T ss_pred             ccccc
Confidence            88775

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

Probab=99.68  E-value=4.1e-13  Score=116.27  Aligned_cols=419  Identities=13%  Similarity=0.007  Sum_probs=250.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcc-hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHN-GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      ..-|-++|++++|++.|.++.+..|    + +.-|.....+|...|+|+++.+--....+.. +.-+-.+..-.+++-..
T Consensus       122 GN~~f~~kkY~eAIkyY~~AI~l~p----~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A~E~l  196 (606)
T KOG0547|consen  122 GNKFFRNKKYDEAIKYYTQAIELCP----DEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASAHEQL  196 (606)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhcCC----CCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHHHHhh
Confidence            4456678899999999999998744    5 6778888888889999999998888887765 33344577777888888


Q ss_pred             CChhHHHHHHHHhh-hCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           94 GQLNEAVSLFKNLS-QFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        94 ~~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      |++++|+.=..-.. -.|... ..+ ..++.-..+.--...+.+-+.  ..+.++-|+....++....+...        
T Consensus       197 g~~~eal~D~tv~ci~~~F~n-~s~-~~~~eR~Lkk~a~~ka~e~~k--~nr~p~lPS~~fi~syf~sF~~~--------  264 (606)
T KOG0547|consen  197 GKFDEALFDVTVLCILEGFQN-ASI-EPMAERVLKKQAMKKAKEKLK--ENRPPVLPSATFIASYFGSFHAD--------  264 (606)
T ss_pred             ccHHHHHHhhhHHHHhhhccc-chh-HHHHHHHHHHHHHHHHHHhhc--ccCCCCCCcHHHHHHHHhhcccc--------
Confidence            88888754322211 111111 110 011111111111111111111  12444556644333333322110        


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHHHhhCCCCc---C------HHHHHHHHHHHHhc
Q 043204          173 VFQEMDFQGCYPDRESYHILMKGLCN-----DRRLNEATHLLYSMFWRISQKGSGE---D------IVIYRTLLFALCDQ  238 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~---~------~~~~~~l~~~~~~~  238 (504)
                          .......+...+...+..++..     ...+..|.+.+.+-... .......   |      ..+.......+.-.
T Consensus       265 ----~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~-~~~~~~~n~~d~~le~~A~al~~~gtF~fL~  339 (606)
T KOG0547|consen  265 ----PKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLG-SESSLSVNEIDAELEYMAEALLLRGTFHFLK  339 (606)
T ss_pred             ----ccccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhh-hhhhccccccchhHHHHHHHHHHhhhhhhhc
Confidence                0000000011111111111110     11233333332221000 0000000   1      11222222234456


Q ss_pred             CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHH
Q 043204          239 GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKV  318 (504)
Q Consensus       239 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  318 (504)
                      |+.-.|..-|+..+.....  ....+..+...+....+.+...+.|......++. ++.+|..-.....-.+++++|..-
T Consensus       340 g~~~~a~~d~~~~I~l~~~--~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  340 GDSLGAQEDFDAAIKLDPA--FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             CCchhhhhhHHHHHhcCcc--cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHH
Confidence            7888888888888876433  3333555677778888888888888888877665 566666666677777889999999


Q ss_pred             HHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcC
Q 043204          319 LDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVG  398 (504)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  398 (504)
                      |++.++..+. +...|-.+.-+..+.+.++++...|++...+.  +..+..|+.....+...++++.|.+.|+...+.  
T Consensus       417 F~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--  491 (606)
T KOG0547|consen  417 FQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKKF--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--  491 (606)
T ss_pred             HHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--
Confidence            9998886533 55666666666778889999999999855553  445667888888899999999999999988754  


Q ss_pred             CCCc---------hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          399 CVAN---------GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       399 ~~p~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                       .|+         +.+-.+++-.-. .+++..|..++++..+.+ +-....|..|...-...|+.++|+++|++...
T Consensus       492 -E~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  492 -EPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             -ccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             333         222233332223 388999999999998864 33456788888888999999999999998764

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=3.6e-13  Score=123.98  Aligned_cols=297  Identities=12%  Similarity=0.027  Sum_probs=181.9

Q ss_pred             hccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHH
Q 043204           56 SESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAH  135 (504)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  135 (504)
                      ...|+++.|.+.+.+..+.. +-+...+-....+..+.|+++.|.+.+....+....+...........+...|+++.|.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~-~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHA-AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            45799999999998887764 22333455566778888999999999999876543333334444577888899999999


Q ss_pred             HHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHH-HHHHHH---HhcCCHHHHHHHHHH
Q 043204          136 ILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYH-ILMKGL---CNDRRLNEATHLLYS  211 (504)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~---~~~~~~~~a~~~~~~  211 (504)
                      ..++.+....+.  +...+..+...+...|+++.|.+++..+.+.++. +...+. .-..++   ...+..+++.+.+..
T Consensus       174 ~~l~~l~~~~P~--~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       174 HGVDKLLEMAPR--HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHhCCC--CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999876433  3456778888999999999999999999988654 333332 111221   223333333445555


Q ss_pred             HHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC
Q 043204          212 MFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG  291 (504)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  291 (504)
                      +.....+ ..+.+...+..+...+...|+.++|.+.+++..+............+....                     
T Consensus       251 ~~~~~p~-~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~---------------------  308 (409)
T TIGR00540       251 WWKNQPR-HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIP---------------------  308 (409)
T ss_pred             HHHHCCH-HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhh---------------------
Confidence            5211111 112377888888899999999999999999998864321110000111111                     


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcch--hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHH
Q 043204          292 GIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSL--VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV  369 (504)
Q Consensus       292 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  369 (504)
                                    ....++.+.+.+.++...+..+. |+  ....++...+.+.|++++|.+.|+. .......|+...
T Consensus       309 --------------~l~~~~~~~~~~~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~-a~a~~~~p~~~~  372 (409)
T TIGR00540       309 --------------RLKPEDNEKLEKLIEKQAKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKN-VAACKEQLDAND  372 (409)
T ss_pred             --------------hcCCCChHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHH-hHHhhcCCCHHH
Confidence                          11124444555555555443211 33  3444556666666666666666663 111112455555


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          370 YNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       370 ~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      +..+...+.+.|+.++|.++|++..
T Consensus       373 ~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       373 LAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566666666666666666666543

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=99.67  E-value=2.2e-13  Score=125.32  Aligned_cols=133  Identities=16%  Similarity=0.075  Sum_probs=87.1

Q ss_pred             chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHH---HHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhH
Q 043204          330 SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV---YNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETY  406 (504)
Q Consensus       330 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~  406 (504)
                      +...+..+...+...|+.++|.+++++.+...   |+...   ...........++.+.+.+.++...+...-.|+....
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~---pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll  338 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL---GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCIN  338 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC---CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHH
Confidence            66777777788888888888888888755543   23221   1111112233466777777777776542222221455


Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          407 GILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       407 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      .++...|.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++..
T Consensus       339 ~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       339 RALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            67778888888888888888854443345777777788888888888888888888764

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.

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

Probab=99.66  E-value=1e-12  Score=107.90  Aligned_cols=290  Identities=15%  Similarity=0.071  Sum_probs=185.2

Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch--HHHHHHHHHHHhhcCCHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR--IQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a  170 (504)
                      +++.++|..+|-+|.+.+ +.+..+..+|.+.|-+.|.+|.|+++.+.+..+++..-+  ......|..-|...|-++.|
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            356777777777777644 233455567777777777777777777777766544333  23344566677778888888


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED----IVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      +++|..+.+.+ ..-......|+..|-...+|++|.++-+++    .+.+..+.    ...|..+...+....+.+.|..
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L----~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~  201 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERL----VKLGGQTYRVEIAQFYCELAQQALASSDVDRARE  201 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHH----HHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            88888887654 224456677788888888888888887766    44444433    2345666666667778888888


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      ++.+..+.  .|.......++.......|+++.|.+.++.+.+.++.--..+...+..+|.+.|+.++....+..+.+..
T Consensus       202 ~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         202 LLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            88888776  3555666666667777777777777777777766555555666777777777788888887777777653


Q ss_pred             CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh---cCChHHHHHHHHHHHH
Q 043204          327 FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD---AGNSAVAVMYLKKMSK  395 (504)
Q Consensus       327 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~  395 (504)
                      ..+  ..-..+...-....-.+.|...+.+-+.+   +|+...+..+|..-..   .|...+...+++.|..
T Consensus       280 ~g~--~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r---~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         280 TGA--DAELMLADLIELQEGIDAAQAYLTRQLRR---KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             CCc--cHHHHHHHHHHHhhChHHHHHHHHHHHhh---CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            322  22233333333344455555555442433   5777777777765433   2334555555555544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=1.4e-12  Score=119.36  Aligned_cols=149  Identities=18%  Similarity=0.097  Sum_probs=97.5

Q ss_pred             hcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHH
Q 043204          308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAV  387 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  387 (504)
                      ...+.+...++++.+.+. .+.++.....+...+...|+.++|.+++++... .  +|+....  ++.+....++.+++.
T Consensus       241 ~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~-~--~~~~~l~--~l~~~l~~~~~~~al  314 (398)
T PRK10747        241 ADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK-R--QYDERLV--LLIPRLKTNNPEQLE  314 (398)
T ss_pred             HhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-c--CCCHHHH--HHHhhccCCChHHHH
Confidence            334455555555555433 233666777777777888888888888777444 2  3443221  223334557777777


Q ss_pred             HHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          388 MYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       388 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +..+...+.  .+-|...+.++...|.+.|++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+++++...
T Consensus       315 ~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        315 KVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            777777764  2334455667777788888888888888877775  37777777777778888888888777777653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=1.1e-12  Score=120.11  Aligned_cols=284  Identities=12%  Similarity=0.046  Sum_probs=177.3

Q ss_pred             cCChhHHHHHHHHhhcCCCCccHHH-HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHH
Q 043204           58 SNRITEMKEVIDQMKGDSCECKDSV-FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHI  136 (504)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  136 (504)
                      .|+++.|.+.+....+..  +++.. |.....+..+.|+++.|.+.|.++.+....+...........+...|+++.|..
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 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            588888888887765542  22333 333345557888888898888888765433322222233667788888888888


Q ss_pred             HHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH-------hhHHHHHHHHHhcCCHHHHHHHH
Q 043204          137 LFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR-------ESYHILMKGLCNDRRLNEATHLL  209 (504)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~  209 (504)
                      .++++.+..+-  +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+++
T Consensus       175 ~l~~~~~~~P~--~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        175 GVDKLLEVAPR--HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHhcCCC--CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            88888765433  3456677888888888999998888888877644222       12233333333444445555555


Q ss_pred             HHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHH
Q 043204          210 YSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALI  289 (504)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  289 (504)
                      +..    ... .+.+......+...+...|+.++|.+++++..+..                                  
T Consensus       253 ~~l----p~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~----------------------------------  293 (398)
T PRK10747        253 KNQ----SRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ----------------------------------  293 (398)
T ss_pred             HhC----CHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC----------------------------------
Confidence            544    221 23467777888888888888888888888877642                                  


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHH
Q 043204          290 RGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV  369 (504)
Q Consensus       290 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  369 (504)
                          ++....  ++.+....++.+++.+..+...+..+. |......+...+.+.+++++|.+.|+..+..   .|+...
T Consensus       294 ----~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~---~P~~~~  363 (398)
T PRK10747        294 ----YDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ---RPDAYD  363 (398)
T ss_pred             ----CCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHH
Confidence                122111  112222336666666666666655332 4555666666666677777777776663332   466666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          370 YNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       370 ~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      +..+...+.+.|+.++|.+++++-.
T Consensus       364 ~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        364 YAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666666777777766666654

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

Probab=99.64  E-value=2.1e-11  Score=105.30  Aligned_cols=259  Identities=12%  Similarity=0.039  Sum_probs=142.3

Q ss_pred             HHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC--CcCHHHHHHHHHHH
Q 043204          158 MDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS--GEDIVIYRTLLFAL  235 (504)
Q Consensus       158 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~  235 (504)
                      ..++-.....+++..-.+.....|++-+...-+....+.....++++|+.+|+++    .+..+  --|..+|..++  |
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei----~knDPYRl~dmdlySN~L--Y  307 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEI----RKNDPYRLDDMDLYSNVL--Y  307 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHH----HhcCCCcchhHHHHhHHH--H
Confidence            3444555566666666666666666544444444445555667777777777777    33211  12455665554  3


Q ss_pred             HhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHH
Q 043204          236 CDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEG  315 (504)
Q Consensus       236 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  315 (504)
                      .+..+-.  +.++.+-.. .+.--...+..++...+.-.++.+.|...|++.++.++. ....|+.+..-|....+...|
T Consensus       308 v~~~~sk--Ls~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AA  383 (559)
T KOG1155|consen  308 VKNDKSK--LSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAA  383 (559)
T ss_pred             HHhhhHH--HHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHH
Confidence            3322211  111111110 011112223334455556666666666666666655443 445555555566666666666


Q ss_pred             HHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          316 DKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      +.-++...+-++. |-..|-.|.++|.-.+...-|+-.|+++..-.  +-|...|.+|..+|.+.++.++|++.|.....
T Consensus       384 i~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k--PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~  460 (559)
T KOG1155|consen  384 IESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK--PNDSRLWVALGECYEKLNRLEEAIKCYKRAIL  460 (559)
T ss_pred             HHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            6666666665432 55666666666666666666666666533332  34556666666666666666666666666655


Q ss_pred             hcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          396 QVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       396 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      - +- .+...+..|.+.|-+.++.++|...|++..+
T Consensus       461 ~-~d-te~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  461 L-GD-TEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             c-cc-cchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3 21 2445566666666666666666666665554

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

Probab=99.63  E-value=1.7e-12  Score=120.44  Aligned_cols=250  Identities=12%  Similarity=0.080  Sum_probs=167.7

Q ss_pred             HHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           30 IFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        30 ~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      ++-.+...  |+.|+..||..+|.-|+..|+.+.|- +|..|.-...+.+...++.++....+.++.+.+.         
T Consensus        12 fla~~e~~--gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   12 FLALHEIS--GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             HHHHHHHh--cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            44555555  78888888888888888888888887 8888887777777778888888888888777665         


Q ss_pred             CCCccHHHHHHHHHHHHhcchHHH---HHHHHHHhh--------------------cCCCCcchHHHHHHHHHHHhhcCC
Q 043204          110 NCVNWTQSFNTLLKEMVKESKLEA---AHILFLRSC--------------------YGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus       110 ~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~--------------------~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                        .|.+.+|..|..+|...||+..   ..+.+..+.                    ..++..||..   ..+......|-
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~egl  154 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGL  154 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHH
Confidence              5667788888888888887654   222121111                    1112223322   22333344566


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      ++.+++++..+....-. .  ++-..++-+.....  ...++....    ....-.|++.+|..++.+-...|+.+.|..
T Consensus       155 waqllkll~~~Pvsa~~-~--p~~vfLrqnv~~nt--pvekLl~~c----ksl~e~~~s~~l~a~l~~alaag~~d~Ak~  225 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAWN-A--PFQVFLRQNVVDNT--PVEKLLNMC----KSLVEAPTSETLHAVLKRALAAGDVDGAKN  225 (1088)
T ss_pred             HHHHHHHHhhCCccccc-c--hHHHHHHHhccCCc--hHHHHHHHH----HHhhcCCChHHHHHHHHHHHhcCchhhHHH
Confidence            66666666555432111 1  11112444433322  223333322    111115889999999999999999999999


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      ++.+|.+.|++.....++.++..    .++...++.+++-|.+.|+.|+..|+...+..+...
T Consensus       226 ll~emke~gfpir~HyFwpLl~g----~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N  284 (1088)
T KOG4318|consen  226 LLYEMKEKGFPIRAHYFWPLLLG----INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSN  284 (1088)
T ss_pred             HHHHHHHcCCCcccccchhhhhc----CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcc
Confidence            99999999998888877777766    788888889999999999999999988877766663

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

Probab=99.61  E-value=4.2e-12  Score=104.36  Aligned_cols=225  Identities=14%  Similarity=0.067  Sum_probs=137.1

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc---HHHHHHHHHHHHhcCChh
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK---DSVFATAIRTYARAGQLN   97 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~   97 (504)
                      .+++++|..+|-.|.+..|.   +..+-.+|.+.|-+.|..+.|+.+.+.+.+..--+.   ..+...|.+-|...|-++
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~---t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE---TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch---hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            45667777777777776554   555566677777777777777777777665321111   123445556667777777


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch---HHHHHHHHHHHhhcCCHHHHHHHH
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR---IQSLNLLMDVLCQCRRSDLALHVF  174 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~  174 (504)
                      .|+.+|..+.+.+... ......|+..|....+|++|+.+-+++....+.+-+   ...|.-|...+....+.+.|..++
T Consensus       125 RAE~~f~~L~de~efa-~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGEFA-EGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchhhh-HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            7777777776644222 345566777777777777777777666543322222   223444555555566777777777


Q ss_pred             HHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          175 QEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       175 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .+..+.+.+ .+..=-.+-+.....|+++.|.+.++.+    .+.+..--..+...|..+|.+.|+.++...++..+.+.
T Consensus       204 ~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v----~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         204 KKALQADKK-CVRASIILGRVELAKGDYQKAVEALERV----LEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHH----HHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            776665321 2223333445666777777777777766    45544444556666777777777777777777766654

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

Probab=99.60  E-value=1.1e-10  Score=100.93  Aligned_cols=383  Identities=12%  Similarity=-0.036  Sum_probs=248.3

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHH-HHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSF-NTLL  122 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~ll  122 (504)
                      |...+......+-+.|....|...|......- |-.=..|..|.....   +.+.+..+-..+..    .+...- --+.
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~lit---~~e~~~~l~~~l~~----~~h~M~~~F~~  234 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELIT---DIEILSILVVGLPS----DMHWMKKFFLK  234 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhhc---hHHHHHHHHhcCcc----cchHHHHHHHH
Confidence            54444455556667788888888887776543 333334544444332   22222222111111    011111 1344


Q ss_pred             HHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCC--CCHhhHHHHHHHHHhcC
Q 043204          123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCY--PDRESYHILMKGLCNDR  200 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~~  200 (504)
                      .++......+++..-.+..... |.+.+...-+....+.-...|+++|+.+|+++.++..-  -|..+|+.++-.-....
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~-gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s  313 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSV-GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhc-cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH
Confidence            5555666777777766666543 33333333344444556678888888888888876311  25567777664322211


Q ss_pred             CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHH
Q 043204          201 RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGA  280 (504)
Q Consensus       201 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  280 (504)
                      .    +.++.+-..  .-  .+--+.|...+.+-|+-.++.++|..+|+..++.  .|.....+++++.-+....+...|
T Consensus       314 k----Ls~LA~~v~--~i--dKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AA  383 (559)
T KOG1155|consen  314 K----LSYLAQNVS--NI--DKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAA  383 (559)
T ss_pred             H----HHHHHHHHH--Hh--ccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHH
Confidence            1    122211110  11  1223457777788888888888888888888875  467777788888888888888888


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhc
Q 043204          281 KSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK  360 (504)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  360 (504)
                      ...++.+++.++. |-..|-.+..+|.-.+...-|+-.|++.....+. |...|.+|.++|.+.++.++|++.|..+..-
T Consensus       384 i~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~  461 (559)
T KOG1155|consen  384 IESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILL  461 (559)
T ss_pred             HHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhc
Confidence            8888888877654 7888999999999999999999999999886433 8999999999999999999999999996554


Q ss_pred             CCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhc---C-CCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcC
Q 043204          361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQV---G-CVAN-GETYGILVDGLCRDGRFLEASRVLEEMLIRSYW  435 (504)
Q Consensus       361 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  435 (504)
                      .  ..+...+..|.+.|-+.++.++|...|++..+..   | +.|. .....-|..-+.+.+++++|.........-   
T Consensus       462 ~--dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~---  536 (559)
T KOG1155|consen  462 G--DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG---  536 (559)
T ss_pred             c--ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC---
Confidence            4  3456789999999999999999999999887641   2 2221 222233555667778888877665544432   


Q ss_pred             CCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          436 PCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       436 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                                     .-..++|..++++..+.
T Consensus       537 ---------------~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  537 ---------------ETECEEAKALLREIRKI  553 (559)
T ss_pred             ---------------CchHHHHHHHHHHHHHh
Confidence                           12345666666666643

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

Probab=99.60  E-value=3.6e-11  Score=102.09  Aligned_cols=299  Identities=18%  Similarity=0.123  Sum_probs=173.2

Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATH  207 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  207 (504)
                      .|++..|++...+..+.. ..| ...|-.-..+--..||.+.+-+++.+..+.--.++...+-+........|+++.|..
T Consensus        97 eG~~~qAEkl~~rnae~~-e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG-EQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            366666666665544331 122 233334444555566677777776666654323445555555666666677777776


Q ss_pred             HHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHH
Q 043204          208 LLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEA  287 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  287 (504)
                      -++++    ...+.. +........++|.+.|++.....++..+.+.+.-.+ .....+                     
T Consensus       175 ~v~~l----l~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~-~e~~~l---------------------  227 (400)
T COG3071         175 NVDQL----LEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSD-EEAARL---------------------  227 (400)
T ss_pred             HHHHH----HHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCCh-HHHHHH---------------------
Confidence            66666    333322 455666666777777777777777777776665433 222111                     


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccH
Q 043204          288 LIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTV  367 (504)
Q Consensus       288 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  367 (504)
                             ...+|..++.-....+..+.-...++..... .+-++..-.+++.-+..+|+.++|.++.++.+++. ..|+.
T Consensus       228 -------e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~-~D~~L  298 (400)
T COG3071         228 -------EQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQ-WDPRL  298 (400)
T ss_pred             -------HHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhc-cChhH
Confidence                   3345555555555555555555555555432 22345555666666777777777777777644433 34441


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHH
Q 043204          368 RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRG  447 (504)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  447 (504)
                      .    ..-.+.+-++.+.-++..+.-.+..+..|  ..+.+|...|.+.+.+.+|...|+...+.  .|+..+|+.+.++
T Consensus       299 ~----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~  370 (400)
T COG3071         299 C----RLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADA  370 (400)
T ss_pred             H----HHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHH
Confidence            1    11234556666666666666555433333  56667777777777777777777766654  4777777777777


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCC
Q 043204          448 LCSIGKQYEAVMWLEEMISQAKLPD  472 (504)
Q Consensus       448 ~~~~g~~~~a~~~~~~~~~~~~~p~  472 (504)
                      +.+.|+..+|.++.++..-.-..|+
T Consensus       371 ~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         371 LDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHcCChHHHHHHHHHHHHHhcCCC
Confidence            7777777777777777664333333

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

Probab=99.59  E-value=2.5e-11  Score=102.99  Aligned_cols=299  Identities=14%  Similarity=0.058  Sum_probs=199.7

Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALH  172 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  172 (504)
                      .|++..|+++..+-.+.+..| ...|..-..+....|+.+.+-.++.+..+.. ..++....-+........|+.+.|..
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~-~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELA-GDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccC-CCchHHHHHHHHHHHHhCCCchhHHH
Confidence            488888888888877777666 5566666677777888888888888876542 23455566666777788888888888


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          173 VFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      -++.+.+.+.. ++........+|.+.|++.....++.++    .+.+.-.+...-..=-.+|         .-++++..
T Consensus       175 ~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L----~ka~~l~~~e~~~le~~a~---------~glL~q~~  240 (400)
T COG3071         175 NVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKL----RKAGLLSDEEAARLEQQAW---------EGLLQQAR  240 (400)
T ss_pred             HHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHH----HHccCCChHHHHHHHHHHH---------HHHHHHHh
Confidence            88888777543 5667777888888888888888888888    6666554432211111111         11222222


Q ss_pred             HcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchh
Q 043204          253 RKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLV  332 (504)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  332 (504)
                      ..                    ++.+.-...++..... .+.++..-.+++.-+.+.|+.++|.++..+..+++..|.  
T Consensus       241 ~~--------------------~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--  297 (400)
T COG3071         241 DD--------------------NGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--  297 (400)
T ss_pred             cc--------------------ccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--
Confidence            11                    1111112222222211 223556666777777888888888888888888766555  


Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHH
Q 043204          333 MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDG  412 (504)
Q Consensus       333 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  412 (504)
                        -...-.+.+.++.+.-++..++.....+..|  ..+.+|...|.+.+.+.+|...|+...   ...|+..+|+.+.++
T Consensus       298 --L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl---~~~~s~~~~~~la~~  370 (400)
T COG3071         298 --LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAAL---KLRPSASDYAELADA  370 (400)
T ss_pred             --HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHH---hcCCChhhHHHHHHH
Confidence              1222345667777777777777677765555  567777788888888888888888666   457888888888888


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCcCCC
Q 043204          413 LCRDGRFLEASRVLEEMLIRSYWPC  437 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~~~~~~~  437 (504)
                      +.+.|+..+|.++.++....-.+|+
T Consensus       371 ~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         371 LDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHcCChHHHHHHHHHHHHHhcCCC
Confidence            8888888888888887765433444

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

Probab=99.58  E-value=9.2e-13  Score=118.75  Aligned_cols=195  Identities=16%  Similarity=0.036  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHH---H
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIV---I  227 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~  227 (504)
                      .+|.++..+|.-+++.+.|++.|++..+.+  | ...+|+.+-.-+.....+|.|...|+..        +..|..   .
T Consensus       422 esWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~A--------l~~~~rhYnA  491 (638)
T KOG1126|consen  422 ESWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKA--------LGVDPRHYNA  491 (638)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhh--------hcCCchhhHH
Confidence            455555555555555555555555555432  2 3444554444455555555555555544        111222   2


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 043204          228 YRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLY  307 (504)
Q Consensus       228 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  307 (504)
                      |.-+.-.|.+.++++.|.-.|+.+.+-  .|.+......+...+.+.|..++|+.+++++...+.. |+..--.....+.
T Consensus       492 wYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~  568 (638)
T KOG1126|consen  492 WYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILF  568 (638)
T ss_pred             HHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHH
Confidence            333444555555555555555555442  3444444444455555555555555555555544433 3333333445566


Q ss_pred             hcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhc
Q 043204          308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK  360 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  360 (504)
                      ..+++++|+..++++.+.- +-+...+..+...|.+.|+.+.|+.-|--++.-
T Consensus       569 ~~~~~~eal~~LEeLk~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  569 SLGRYVEALQELEELKELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             hhcchHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            6688888888888887752 225666777777888888888888777764443

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

Probab=99.58  E-value=1.5e-10  Score=100.74  Aligned_cols=414  Identities=11%  Similarity=0.026  Sum_probs=256.9

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCcc-HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECK-DSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      +-...+-|.++|++++|++.+...++..  |+ +..|.....+|...|+++++.+.-....+.++. .+.++..-.+++-
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHHH
Confidence            4455677889999999999999999874  66 677899999999999999999888777776522 2345555556666


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHH--------HH-hhhCC--CCCCHhhHHHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVF--------QE-MDFQG--CYPDRESYHILMKG  195 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~--------~~-~~~~~--~~p~~~~~~~l~~~  195 (504)
                      ..|++++|+.=..-.              ++...+....-.--+.+++        ++ +.+.+  +-|+.....+....
T Consensus       195 ~lg~~~eal~D~tv~--------------ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~s  260 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVL--------------CILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGS  260 (606)
T ss_pred             hhccHHHHHHhhhHH--------------HHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhh
Confidence            777777764433222              2222222222222222222        21 22122  23444333333333


Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc-CchhHHHHHHHHHHHcCCCCCc-----------chh
Q 043204          196 LCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ-GKIQDAMQILEKILRKGLKAPK-----------SRR  263 (504)
Q Consensus       196 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~-----------~~~  263 (504)
                      +...-.        ..+    ...+.+-|...-..+=..+... ..+..|.+.+.+-........+           ...
T Consensus       261 F~~~~~--------~~~----~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~a  328 (606)
T KOG0547|consen  261 FHADPK--------PLF----DNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEA  328 (606)
T ss_pred             cccccc--------ccc----cCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHH
Confidence            211000        000    0000000111000000001100 0122222222222111100000           111


Q ss_pred             hhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc
Q 043204          264 HRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK  343 (504)
Q Consensus       264 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  343 (504)
                      ..+...++.-.|+.-.|..-|+..+.....++. .|-.+...|....+.++....|....+.++. ++.+|..-.+.+.-
T Consensus       329 l~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~fl  406 (606)
T KOG0547|consen  329 LLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFL  406 (606)
T ss_pred             HHHhhhhhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHH
Confidence            222344556678888999999999887665433 3666777899999999999999999998755 77888888888888


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHH
Q 043204          344 DGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEAS  423 (504)
Q Consensus       344 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  423 (504)
                      .+++++|..-|++...-.  +-+...|..+..+..+.+.+++++..|++..++  ++..+..|+.....+...++++.|.
T Consensus       407 L~q~e~A~aDF~Kai~L~--pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~  482 (606)
T KOG0547|consen  407 LQQYEEAIADFQKAISLD--PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAV  482 (606)
T ss_pred             HHHHHHHHHHHHHHhhcC--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHH
Confidence            999999999999855433  335566777777777899999999999999985  5556778898999999999999999


Q ss_pred             HHHHHHHhcC-----cCCCcchH--HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCCchhHHHH
Q 043204          424 RVLEEMLIRS-----YWPCVETY--NVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI-SVWSSLVASVCCNTADLNVCRK  495 (504)
Q Consensus       424 ~~~~~~~~~~-----~~~~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~a~~  495 (504)
                      +.|+..++..     +..++..+  ..++ .+--.+++..|.+++.+..+  +.|.. ..+.+|...-...++ .++|.+
T Consensus       483 k~YD~ai~LE~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~-i~eAie  558 (606)
T KOG0547|consen  483 KQYDKAIELEPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGK-IDEAIE  558 (606)
T ss_pred             HHHHHHHhhccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhh-HHHHHH
Confidence            9999998752     11122111  1122 11234899999999999984  45654 456666665455555 999999


Q ss_pred             HHHHh
Q 043204          496 TLEQL  500 (504)
Q Consensus       496 ~~~~~  500 (504)
                      +|++-
T Consensus       559 lFEks  563 (606)
T KOG0547|consen  559 LFEKS  563 (606)
T ss_pred             HHHHH
Confidence            99874

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

Probab=99.55  E-value=1.1e-12  Score=118.30  Aligned_cols=287  Identities=13%  Similarity=0.004  Sum_probs=224.3

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHHHHhcCChhH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRTYARAGQLNE   98 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~   98 (504)
                      +-+.++|+..|+...+..++   .......+..+|...+++++|.++|+.+.+...  ..+..+|.+.+-.+-+    +-
T Consensus       332 ~y~~~~A~~~~~klp~h~~n---t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v  404 (638)
T KOG1126|consen  332 QYNCREALNLFEKLPSHHYN---TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EV  404 (638)
T ss_pred             HHHHHHHHHHHHhhHHhcCC---chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hH
Confidence            44788999999998777655   557778889999999999999999999987641  2355678777755533    22


Q ss_pred             HHHHHH-HhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043204           99 AVSLFK-NLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQE  176 (504)
Q Consensus        99 a~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  176 (504)
                      ++..+. .+.+.+ +..+.+|.++.+.|.-+++.+.|++.|++..+-   .| ...+|+.+..-+.....+|.|...|+.
T Consensus       405 ~Ls~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl---dp~faYayTLlGhE~~~~ee~d~a~~~fr~  480 (638)
T KOG1126|consen  405 ALSYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL---DPRFAYAYTLLGHESIATEEFDKAMKSFRK  480 (638)
T ss_pred             HHHHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc---CCccchhhhhcCChhhhhHHHHhHHHHHHh
Confidence            333333 333333 445789999999999999999999999999854   44 678999999999999999999999999


Q ss_pred             hhhCCCCCCHhhHH---HHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          177 MDFQGCYPDRESYH---ILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       177 ~~~~~~~p~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      .+..    |+..|+   -+.-.|.+.++++.|+-.|+++    .+.+.. +.+....+...+-+.|+.++|+.+++++..
T Consensus       481 Al~~----~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA----~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~  551 (638)
T KOG1126|consen  481 ALGV----DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKA----VEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIH  551 (638)
T ss_pred             hhcC----CchhhHHHHhhhhheeccchhhHHHHHHHhh----hcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence            8854    555554   4566789999999999999988    454433 667777888889999999999999999987


Q ss_pred             cCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcc
Q 043204          254 KGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPS  330 (504)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  330 (504)
                      .  .|.+.....--+..+...+++++|+..++++.+.-+. +...+..+...|-+.|+.+.|+.-|..+.+..+++.
T Consensus       552 l--d~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  552 L--DPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             c--CCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            6  4555555555577778889999999999999876433 556677777788888999999999999988765543

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

Probab=99.54  E-value=1.6e-09  Score=97.67  Aligned_cols=473  Identities=10%  Similarity=0.014  Sum_probs=291.6

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      |-.-++.+..+|+...-...|++++...|- ..-...|...+......+-++.+..++++..+..    +..-+..|..+
T Consensus       105 wl~Ylq~l~~Q~~iT~tR~tfdrALraLpv-tqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L  179 (835)
T KOG2047|consen  105 WLDYLQFLIKQGLITRTRRTFDRALRALPV-TQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHhCch-HhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHH
Confidence            455667778899999999999999998763 3345678899999999999999999999998653    44467778888


Q ss_pred             HhcCChhHHHHHHHHhhhCC------CCccHHHHHHHHHHHHhcchHHH---HHHHHHHhhcCCCCcch--HHHHHHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFN------CVNWTQSFNTLLKEMVKESKLEA---AHILFLRSCYGWEVKSR--IQSLNLLMD  159 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~~--~~~~~~l~~  159 (504)
                      +..+++++|.+.+......+      .+.+-..|..+-+..++..+.-.   ...+++....   .-+|  -..|++|.+
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~---rftDq~g~Lw~SLAd  256 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR---RFTDQLGFLWCSLAD  256 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc---cCcHHHHHHHHHHHH
Confidence            99999999999998776432      12233445555555555433322   2334444332   2334  357899999


Q ss_pred             HHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC----------------------CHHHHHHHHHHHHHH--
Q 043204          160 VLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDR----------------------RLNEATHLLYSMFWR--  215 (504)
Q Consensus       160 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~----------------------~~~~a~~~~~~~~~~--  215 (504)
                      .|.+.|.+++|.++|++....  ..+..-|..+..+|+.-.                      +++-....|+.+..+  
T Consensus       257 YYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~  334 (835)
T KOG2047|consen  257 YYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRP  334 (835)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccc
Confidence            999999999999999988765  335555666666664321                      122222233332100  


Q ss_pred             ------HhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCC-----CcchhhhhhccccCCCCChHHHHHHH
Q 043204          216 ------ISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKA-----PKSRRHRIDLCPCNDGEDIEGAKSLI  284 (504)
Q Consensus       216 ------~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~a~~~~  284 (504)
                            +... .+.++..|..-+..  ..|+..+....+.+..+. +.|     .......-...+|.+.|+++.|..+|
T Consensus       335 ~~lNsVlLRQ-n~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  335 LLLNSVLLRQ-NPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             hHHHHHHHhc-CCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence                  0000 11233344433332  345667777777777664 222     22334444577888999999999999


Q ss_pred             HHHHHcCCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-----------Cc------chhhHHHHHHHHhcC
Q 043204          285 NEALIRGGIPS---LASYSAMAIDLYNEGRIVEGDKVLDEMRTKGF-----------WP------SLVMYEAKLAALFKD  344 (504)
Q Consensus       285 ~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------~~------~~~~~~~l~~~~~~~  344 (504)
                      ++..+-...--   ..+|......-.+..+++.|.++.+......-           ++      +...|...++.--..
T Consensus       411 eka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  411 EKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            99876543211   23444444444556778888887776643211           11      223445555555567


Q ss_pred             CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh---cCcHHH
Q 043204          345 GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR---DGRFLE  421 (504)
Q Consensus       345 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~  421 (504)
                      |-++....+|++++.-.-..|....  .....+-.+.-++++.++|++-...+..+--...|+..+.-+.+   ...++.
T Consensus       491 gtfestk~vYdriidLriaTPqii~--NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEr  568 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIATPQIII--NYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLER  568 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcCCHHHHH--HHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHH
Confidence            7888888888885554444444332  12222345566788888888766542222223467766655554   236889


Q ss_pred             HHHHHHHHHhcCcCCCcchHHHHH--HHHHccCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCCchhHHHHHH
Q 043204          422 ASRVLEEMLIRSYWPCVETYNVLI--RGLCSIGKQYEAVMWLEEMISQAKLPDI--SVWSSLVASVCCNTADLNVCRKTL  497 (504)
Q Consensus       422 A~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~~~~~~~a~~~~  497 (504)
                      |..+|++..+ |.+|...-+--|+  ..=-+.|....|+.++++.... +++..  ..|+..|.-....-| +.....++
T Consensus       569 aRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~yG-v~~TR~iY  645 (835)
T KOG2047|consen  569 ARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYG-VPRTREIY  645 (835)
T ss_pred             HHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhC-CcccHHHH
Confidence            9999999988 5555432222221  1222468888888888887643 44433  567777766555666 66667777


Q ss_pred             HHhhc
Q 043204          498 EQLSS  502 (504)
Q Consensus       498 ~~~~~  502 (504)
                      ++.++
T Consensus       646 ekaIe  650 (835)
T KOG2047|consen  646 EKAIE  650 (835)
T ss_pred             HHHHH
Confidence            66654

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

Probab=99.54  E-value=5.4e-10  Score=100.84  Aligned_cols=428  Identities=15%  Similarity=0.056  Sum_probs=283.6

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhH
Q 043204           19 KKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNE   98 (504)
Q Consensus        19 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (504)
                      -..+++...+.+.+.+++..|.   -..+.....-.+...|+.++|.+..+...+.+ .-+...|..+.-.+....++++
T Consensus        18 yE~kQYkkgLK~~~~iL~k~~e---HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~e   93 (700)
T KOG1156|consen   18 YETKQYKKGLKLIKQILKKFPE---HGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDE   93 (700)
T ss_pred             HHHHHHHhHHHHHHHHHHhCCc---cchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHH
Confidence            3567888999999999998776   44455444555667799999999999888876 4556678877777777889999


Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204           99 AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      |++.|......+ +.+...+..+.-.-++.++++.....-....+.  .+.....|..+..++.-.|+...|..++++..
T Consensus        94 aiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~  170 (700)
T KOG1156|consen   94 AIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFE  170 (700)
T ss_pred             HHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999988766 445677777777778888888877776666543  22245678888888888999999999999988


Q ss_pred             hCC-CCCCHhhHHHHHH------HHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 043204          179 FQG-CYPDRESYHILMK------GLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKI  251 (504)
Q Consensus       179 ~~~-~~p~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  251 (504)
                      +.. -.|+...|.....      ...+.|..+.|.+.+...    . ..+.-....-..-...+.+.+++++|..++..+
T Consensus       171 ~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~----e-~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~L  245 (700)
T KOG1156|consen  171 KTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDN----E-KQIVDKLAFEETKADLLMKLGQLEEAVKVYRRL  245 (700)
T ss_pred             HhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhh----h-hHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHH
Confidence            764 2466666654433      345678888888877655    1 111112223334566788899999999999999


Q ss_pred             HHcCCCCCcchhhhhhccccC-CCCChHHHHHHHHHHHHcCCCCChhhHHHH-HHHHHhcCChhHHHHHHHHHHHCCCCc
Q 043204          252 LRKGLKAPKSRRHRIDLCPCN-DGEDIEGAKSLINEALIRGGIPSLASYSAM-AIDLYNEGRIVEGDKVLDEMRTKGFWP  329 (504)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~  329 (504)
                      +..  .|++..++..+..++. -.+..+....+|....+.-..  ...-..+ +.......-.+....++..+.+.|+++
T Consensus       246 l~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r--~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~  321 (700)
T KOG1156|consen  246 LER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR--HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS  321 (700)
T ss_pred             Hhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc--cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc
Confidence            987  4677777666555553 233333333555555443111  1111111 111111233344556677777788764


Q ss_pred             chhhHHHHHHHHhcCCCHHHHHHHH---HHHHhcCC----------CCccHHHHH--HHHHHHHhcCChHHHHHHHHHHH
Q 043204          330 SLVMYEAKLAALFKDGMVDEALEVI---EEEMVKGT----------FVPTVRVYN--ILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       330 ~~~~~~~l~~~~~~~~~~~~a~~~~---~~~~~~~~----------~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      -   +..+...|-.....+-..++.   ...+...|          -+|+...|+  .++..+-+.|+++.|..+++...
T Consensus       322 v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI  398 (700)
T KOG1156|consen  322 V---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI  398 (700)
T ss_pred             h---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh
Confidence            3   333333332222111111111   11121111          145555444  46677889999999999999988


Q ss_pred             HhcCCCCch-hhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 043204          395 KQVGCVANG-ETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAK  469 (504)
Q Consensus       395 ~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  469 (504)
                      .+   .|+. ..|..=.+.+...|++++|..++++..+.+ .+|...-..-..-..++++.++|.++.....+.|.
T Consensus       399 dH---TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  399 DH---TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             cc---CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            53   6654 345555688999999999999999999876 46655555666777889999999999999988775

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.49  E-value=1.3e-08  Score=91.21  Aligned_cols=456  Identities=15%  Similarity=0.126  Sum_probs=262.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      +..+...+++++|.+...+++...|+   +..++..=+-++.+.+++++|+.+.+.-....  .+...+..-.-+.-+.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pd---d~~a~~cKvValIq~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPD---DEDAIRCKVVALIQLDKYEDALKLIKKNGALL--VINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCC---cHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh--hcchhhHHHHHHHHHcc
Confidence            45566788999999999999998776   78888888889999999999997766543221  11111112223334788


Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHH
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVF  174 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  174 (504)
                      ..++|+..++-...    .+..+...-...+.+.+++++|..+|+.+.......-+...-..++.+-..    -.+ ++.
T Consensus        94 k~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~-~~~  164 (652)
T KOG2376|consen   94 KLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQV-QLL  164 (652)
T ss_pred             cHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhH-HHH
Confidence            99999999883222    123344555667889999999999999997653333332222222222111    111 122


Q ss_pred             HHhhhCCCCCCHhhHHHHHH---HHHhcCCHHHHHHHHHHHHHH----HhhCCCC-cCH-----HHHHHHHHHHHhcCch
Q 043204          175 QEMDFQGCYPDRESYHILMK---GLCNDRRLNEATHLLYSMFWR----ISQKGSG-EDI-----VIYRTLLFALCDQGKI  241 (504)
Q Consensus       175 ~~~~~~~~~p~~~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~----~~~~~~~-~~~-----~~~~~l~~~~~~~g~~  241 (504)
                      +...   ..| ..+|..+.+   .+...|++.+|+++++...+.    +.+.... -+.     .+-..+.-.+-..|+.
T Consensus       165 q~v~---~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  165 QSVP---EVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             Hhcc---CCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence            2222   233 345555443   456899999999999987321    1111111 011     1222345566778999


Q ss_pred             hHHHHHHHHHHHcCCCCCcchh---hhhhccccCCCCChH-HHHHHHHHHHHcCC----------CCChhhHHHHHHHHH
Q 043204          242 QDAMQILEKILRKGLKAPKSRR---HRIDLCPCNDGEDIE-GAKSLINEALIRGG----------IPSLASYSAMAIDLY  307 (504)
Q Consensus       242 ~~a~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~-~a~~~~~~~~~~~~----------~~~~~~~~~ll~~~~  307 (504)
                      ++|..++...++.+.. +....   .+.+..+-....-++ .++..++.......          .......|..+-.+.
T Consensus       241 ~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~  319 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF  319 (652)
T ss_pred             HHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999987542 22111   111122111111111 11111111111000          001112222222221


Q ss_pred             hcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc--CCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH
Q 043204          308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK--DGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV  385 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (504)
                       .+..+.+.++......  ..| ...+..++..+.+  .....++.+++.. .......-...+.-.++......|+++.
T Consensus       320 -tnk~~q~r~~~a~lp~--~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~-~~~~~p~~s~~v~L~~aQl~is~gn~~~  394 (652)
T KOG2376|consen  320 -TNKMDQVRELSASLPG--MSP-ESLFPILLQEATKVREKKHKKAIELLLQ-FADGHPEKSKVVLLLRAQLKISQGNPEV  394 (652)
T ss_pred             -hhhHHHHHHHHHhCCc--cCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHH-HhccCCchhHHHHHHHHHHHHhcCCHHH
Confidence             1333333333322221  122 2344455544332  2357778888876 4443222234455666777889999999


Q ss_pred             HHHHHH--------HHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhc--CcCCCcchHHHHH----HHHHcc
Q 043204          386 AVMYLK--------KMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIR--SYWPCVETYNVLI----RGLCSI  451 (504)
Q Consensus       386 a~~~~~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~l~----~~~~~~  451 (504)
                      |.+++.        .+.+. +.  .+.+...+...+.+.++.+.|..++.+....  .-.+......+++    ..-.+.
T Consensus       395 A~~il~~~~~~~~ss~~~~-~~--~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~  471 (652)
T KOG2376|consen  395 ALEILSLFLESWKSSILEA-KH--LPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRH  471 (652)
T ss_pred             HHHHHHHHhhhhhhhhhhh-cc--ChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhc
Confidence            999999        44433 33  3445677778888888888888888887654  1123333344443    344578


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          452 GKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       452 g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                      |+-++|..+++++.+. ..+|..+...++.+|++.  |++.|..+-+.+
T Consensus       472 G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~--d~eka~~l~k~L  517 (652)
T KOG2376|consen  472 GNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARL--DPEKAESLSKKL  517 (652)
T ss_pred             CchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhc--CHHHHHHHhhcC
Confidence            9999999999999975 367889999999998887  578887766554

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

Probab=99.49  E-value=2.3e-10  Score=101.49  Aligned_cols=285  Identities=9%  Similarity=-0.061  Sum_probs=210.8

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043204          112 VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHI  191 (504)
Q Consensus       112 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  191 (504)
                      .-+......-.+-+...+++.+..++++...+..++.++  .+..-|.++...|+..+-..+=.++.+.- +-.+.+|-+
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~--~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~a  317 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLP--CLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFA  317 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcc--hHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhh
Confidence            334455566666777888999999999998887666555  44555668888888888777777777763 235678888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccc
Q 043204          192 LMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCP  270 (504)
Q Consensus       192 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (504)
                      +.--|...|+..+|.+.|.+.      ..+.|. ...|-.....|.-.|..++|+..+...-+.  -+........+..-
T Consensus       318 Vg~YYl~i~k~seARry~SKa------t~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgme  389 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKA------TTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGME  389 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHH------hhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHH
Confidence            888888889999999999866      223333 457888888899999999999988887664  34445555555666


Q ss_pred             cCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC--CCC----cchhhHHHHHHHHhcC
Q 043204          271 CNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTK--GFW----PSLVMYEAKLAALFKD  344 (504)
Q Consensus       271 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~----~~~~~~~~l~~~~~~~  344 (504)
                      |.+.++.+.|.++|.+.....+. |+...+.+.-.....+.+.+|..+|+.....  .+.    .-..+++.|.++|.+.
T Consensus       390 y~~t~n~kLAe~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl  468 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKL  468 (611)
T ss_pred             HHHhccHHHHHHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHH
Confidence            77888899999999888876544 6667777766666778888998888877632  011    1234577888888899


Q ss_pred             CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHH
Q 043204          345 GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGL  413 (504)
Q Consensus       345 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  413 (504)
                      +.+++|+..+++++...  +.+..++.++.-.|...|+++.|.+.|++..   .+.|+..+...++..+
T Consensus       469 ~~~~eAI~~~q~aL~l~--~k~~~~~asig~iy~llgnld~Aid~fhKaL---~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  469 NKYEEAIDYYQKALLLS--PKDASTHASIGYIYHLLGNLDKAIDHFHKAL---ALKPDNIFISELLKLA  532 (611)
T ss_pred             hhHHHHHHHHHHHHHcC--CCchhHHHHHHHHHHHhcChHHHHHHHHHHH---hcCCccHHHHHHHHHH
Confidence            99999999998877665  5577788888888888999999999998877   5688876666666543

>PRK12370 invasion protein regulator; Provisional

Probab=99.48  E-value=6.1e-11  Score=113.54  Aligned_cols=148  Identities=10%  Similarity=-0.092  Sum_probs=64.0

Q ss_pred             hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHH
Q 043204           61 ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLR  140 (504)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  140 (504)
                      +++|...+++..+.+ +.+..++..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|...+++
T Consensus       320 ~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        320 MIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            445555555555444 3344444444444455555555555555554443 12233444444445555555555555555


Q ss_pred             hhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          141 SCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       141 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      .....+..+.  .+..++..+...|++++|...+++..+...+-+...+..+..++...|++++|...+.++
T Consensus       398 Al~l~P~~~~--~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        398 CLKLDPTRAA--AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             HHhcCCCChh--hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            4433222111  111222223334445555555544443221112223333444444455555555554443

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

Probab=99.48  E-value=1.4e-11  Score=114.48  Aligned_cols=276  Identities=13%  Similarity=0.108  Sum_probs=178.8

Q ss_pred             HHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC
Q 043204           66 EVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      .++-.+...|+.|+..+|..+|.-|+..|+.+.|- +|..|.-...+.....++.++.+....++.+.+.          
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            45667788899999999999999999999999999 9999988888888888999999888888876543          


Q ss_pred             CCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCH
Q 043204          146 EVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDI  225 (504)
Q Consensus       146 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  225 (504)
                        .|...+|..|..+|...||...    |+...+        -...+...+...|.-.....++..+.   ...+.-||.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~---c~p~~lpda  142 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIH---CCPHSLPDA  142 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcc---cCcccchhH
Confidence              5677899999999999999766    222221        11122223334444333334433321   222333343


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID  305 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  305 (504)
                      .+   .+.-..-.|-++.+++++..+.......+...   .+-..-....+++.-..+.+...+   .|+..+|..++..
T Consensus       143 ~n---~illlv~eglwaqllkll~~~Pvsa~~~p~~v---fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~  213 (1088)
T KOG4318|consen  143 EN---AILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV---FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKR  213 (1088)
T ss_pred             HH---HHHHHHHHHHHHHHHHHHhhCCcccccchHHH---HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHH
Confidence            32   22223344555555555544432211111111   112222222233333333333332   4788888888888


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCC
Q 043204          306 LYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGN  382 (504)
Q Consensus       306 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (504)
                      -...|+.+.|..++.+|.+.|++.+..-|..|+-+   .++...+..++.. |...|+.|+..|+...+..+..+|.
T Consensus       214 alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrg-mqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  214 ALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRG-MQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHH-HHHhcCCCCcchhHHHHHhhhcchh
Confidence            88888888888888888888888787777777755   6777777777775 8888888888888877777766554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=4.1e-11  Score=102.51  Aligned_cols=202  Identities=14%  Similarity=0.022  Sum_probs=153.9

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.++...+... .+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHH
Confidence            35567777888888889999998888887765 55567778888888888999999988888877653 33556777788


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      .+...|++++|...+++.......+.....+..+..++...|++++|.+.+++...... .+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHH
Confidence            88888899999888888876433333445667777888888999999999988877532 24567778888888899999


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      +|...+++.    ... .+.+...+..+...+...|+.+.|..+.+.+..
T Consensus       187 ~A~~~~~~~----~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERY----QQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHH----HHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999998887    333 233566666777888888888888888777654

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.47  E-value=1.3e-09  Score=91.25  Aligned_cols=430  Identities=11%  Similarity=0.024  Sum_probs=253.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHH-HHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMI-GILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      +.-+....++..|+.+++.-......   .....+..| .++...|++++|...+..+.... .++...+-.|..++.-.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~E---EE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyL  104 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDRE---EEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYL  104 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchh---hhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHH
Confidence            45566677888899888877654211   122333334 45567899999999998888766 67777787788777788


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      |.+.+|..+-....+..     -.-..+.....+.++-++-..+.+.+...      ..---+|.+.....-.+.+|+++
T Consensus       105 g~Y~eA~~~~~ka~k~p-----L~~RLlfhlahklndEk~~~~fh~~LqD~------~EdqLSLAsvhYmR~HYQeAIdv  173 (557)
T KOG3785|consen  105 GQYIEAKSIAEKAPKTP-----LCIRLLFHLAHKLNDEKRILTFHSSLQDT------LEDQLSLASVHYMRMHYQEAIDV  173 (557)
T ss_pred             HHHHHHHHHHhhCCCCh-----HHHHHHHHHHHHhCcHHHHHHHHHHHhhh------HHHHHhHHHHHHHHHHHHHHHHH
Confidence            88888888766554321     12234444555666666665555554322      11123344444444567888888


Q ss_pred             HHHhhhCCCCCCHhhHHHHH-HHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh--cCchhH-------
Q 043204          174 FQEMDFQGCYPDRESYHILM-KGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD--QGKIQD-------  243 (504)
Q Consensus       174 ~~~~~~~~~~p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~-------  243 (504)
                      +.+....  .|+-...|.-+ -+|.+..-++-+.++++-..    +. ++.+....|..+....+  .|+..+       
T Consensus       174 YkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL----~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~la  246 (557)
T KOG3785|consen  174 YKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYL----RQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELA  246 (557)
T ss_pred             HHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHH----Hh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHH
Confidence            8887765  34444444433 34556666777777766553    21 11122233322222111  111111       


Q ss_pred             -----HHHHHHHHHHcCC------------CC----CcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 043204          244 -----AMQILEKILRKGL------------KA----PKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAM  302 (504)
Q Consensus       244 -----a~~~~~~~~~~~~------------~~----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (504)
                           -....+.+.+.++            -|    ..+.....++-.+.+.+++.+|..+.+++...  .|-......+
T Consensus       247 dN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgv  324 (557)
T KOG3785|consen  247 DNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGV  324 (557)
T ss_pred             hcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHH
Confidence                 0112222222211            00    01122333566788999999999988877421  1222222222


Q ss_pred             HHHH-Hh----cCChhHHHHHHHHHHHCCCCcch-hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Q 043204          303 AIDL-YN----EGRIVEGDKVLDEMRTKGFWPSL-VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKG  376 (504)
Q Consensus       303 l~~~-~~----~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  376 (504)
                      ..+- .+    ...+.-|.+.|+-.-+++..-|. .--.++..++.-..++++++-.++. ++..-...|.+.+| +.++
T Consensus       325 v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnS-i~sYF~NdD~Fn~N-~AQA  402 (557)
T KOG3785|consen  325 VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNS-IESYFTNDDDFNLN-LAQA  402 (557)
T ss_pred             HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHH-HHHHhcCcchhhhH-HHHH
Confidence            2111 11    13345566667666665544333 2335666777777889999988887 77665555555554 6788


Q ss_pred             HHhcCChHHHHHHHHHHHHhcCCCCchhhH-HHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcch-HHHHHHHHHccCCH
Q 043204          377 LCDAGNSAVAVMYLKKMSKQVGCVANGETY-GILVDGLCRDGRFLEASRVLEEMLIRSYWPCVET-YNVLIRGLCSIGKQ  454 (504)
Q Consensus       377 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~  454 (504)
                      ++..|++.+|+++|-.+... .++ |..+| ..|.++|.+++.++.|+.++-++..   +.+..+ ...+...|.+.+.+
T Consensus       403 k~atgny~eaEelf~~is~~-~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eF  477 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGP-EIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEF  477 (557)
T ss_pred             HHHhcChHHHHHHHhhhcCh-hhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHH
Confidence            99999999999999888643 333 45555 4566889999999999877655433   223333 33445678888988


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHH
Q 043204          455 YEAVMWLEEMISQAKLPDISVWS  477 (504)
Q Consensus       455 ~~a~~~~~~~~~~~~~p~~~~~~  477 (504)
                      --|.+.|+.+..  ..|++..|.
T Consensus       478 yyaaKAFd~lE~--lDP~pEnWe  498 (557)
T KOG3785|consen  478 YYAAKAFDELEI--LDPTPENWE  498 (557)
T ss_pred             HHHHHhhhHHHc--cCCCccccC
Confidence            888888888874  456665553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.47  E-value=3.1e-11  Score=103.29  Aligned_cols=196  Identities=12%  Similarity=0.021  Sum_probs=165.2

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|...|+++.+..|.   +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHDPD---DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3566778889999999999999999988776   67888899999999999999999999999876 5667788889999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCC-ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCV-NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                      +...|++++|.+.|+...+.... .....+..+...+...|++++|...+++.....+  .+...+..+...+...|+++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP--QRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CChHHHHHHHHHHHHcCCHH
Confidence            99999999999999998865322 2345667788889999999999999999876532  24557788889999999999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          169 LALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       169 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      +|...+++..+. .+.+...+..+...+...|+.++|..+.+.+
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999999998876 2446677778888888999999999988776

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.

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

Probab=99.47  E-value=2.5e-08  Score=90.35  Aligned_cols=424  Identities=13%  Similarity=0.065  Sum_probs=280.5

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204           17 IIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQL   96 (504)
Q Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (504)
                      .+...|+.++|....+...+.+++   +...|..+.-.+....++++|+++|......+ +.|...+.-+.-.-++.|++
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d~~---S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~  125 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRNDLK---SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDY  125 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccCcc---cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhh
Confidence            455678999999999999988665   77889888888888899999999999999988 78888888877777888899


Q ss_pred             hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHH------HHHhhcCCHHHH
Q 043204           97 NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLM------DVLCQCRRSDLA  170 (504)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~------~~~~~~~~~~~a  170 (504)
                      +.....-....+... .....|..+..++.-.|+...|..+++.........|+...+.-..      ....+.|..+.|
T Consensus       126 ~~~~~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~a  204 (700)
T KOG1156|consen  126 EGYLETRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKA  204 (700)
T ss_pred             hhHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHH
Confidence            998888888877653 2355778888888889999999999998876654445544443332      235667888888


Q ss_pred             HHHHHHhhhCCCCCCHhhH-HHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH-HHHHHHHhcCchhHHH-HH
Q 043204          171 LHVFQEMDFQGCYPDRESY-HILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR-TLLFALCDQGKIQDAM-QI  247 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~-~~  247 (504)
                      .+.+..-...  ..|...+ .+-...+.+.+++++|..++..+    ...  .||..-|. .+..++.+..+.-++. .+
T Consensus       205 le~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~L----l~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~l  276 (700)
T KOG1156|consen  205 LEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRL----LER--NPDNLDYYEGLEKALGKIKDMLEALKAL  276 (700)
T ss_pred             HHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHH----Hhh--CchhHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            8877665543  1233332 33456678899999999999988    443  34555444 4455554343433444 56


Q ss_pred             HHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH---
Q 043204          248 LEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT---  324 (504)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---  324 (504)
                      |....+.  .|.......+-+.......-.+..-.++....+.|+.+   ++..+...|-.....+-..++.-.+..   
T Consensus       277 y~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~  351 (700)
T KOG1156|consen  277 YAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLS  351 (700)
T ss_pred             HHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcc
Confidence            6655443  22222333332333344444455556667777777653   334433333222222211122211111   


Q ss_pred             -CC----------CCcchhhHH--HHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH-HHHHHHHHHHhcCChHHHHHHH
Q 043204          325 -KG----------FWPSLVMYE--AKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR-VYNILLKGLCDAGNSAVAVMYL  390 (504)
Q Consensus       325 -~~----------~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~  390 (504)
                       .|          -+|....|+  .++..|-+.|+++.|...++.++..   .|+.+ .|..=.+.+...|++++|..++
T Consensus       352 ~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH---TPTliEly~~KaRI~kH~G~l~eAa~~l  428 (700)
T KOG1156|consen  352 GTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH---TPTLIELYLVKARIFKHAGLLDEAAAWL  428 (700)
T ss_pred             cccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc---CchHHHHHHHHHHHHHhcCChHHHHHHH
Confidence             11          144544444  5677888999999999999975543   45543 4555557788999999999999


Q ss_pred             HHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcch--------HHHH--HHHHHccCCHHHHHHH
Q 043204          391 KKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVET--------YNVL--IRGLCSIGKQYEAVMW  460 (504)
Q Consensus       391 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--------~~~l--~~~~~~~g~~~~a~~~  460 (504)
                      ++..+.  -.||...-.--..-..++++.++|.++.......|.  +...        |-.+  ..+|.+.|++..|++-
T Consensus       429 ~ea~el--D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKk  504 (700)
T KOG1156|consen  429 DEAQEL--DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKK  504 (700)
T ss_pred             HHHHhc--cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHH
Confidence            998864  345665555666667788999999999998888764  2221        2222  2467888888887766


Q ss_pred             HHHHH
Q 043204          461 LEEMI  465 (504)
Q Consensus       461 ~~~~~  465 (504)
                      |....
T Consensus       505 fh~i~  509 (700)
T KOG1156|consen  505 FHEIE  509 (700)
T ss_pred             HhhHH
Confidence            55543

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

Probab=99.47  E-value=1.4e-09  Score=96.63  Aligned_cols=449  Identities=11%  Similarity=-0.012  Sum_probs=296.0

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      -+..+.+-+..+.++.-|+-+-+++...  +.  |+..---+++++.-.|+++.|..++..-.-.  ..|..+......+
T Consensus        18 ~~~~~~r~~l~q~~y~~a~f~adkV~~l--~~--dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~~   91 (611)
T KOG1173|consen   18 KYRRLVRDALMQHRYKTALFWADKVAGL--TN--DPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAKC   91 (611)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhc--cC--ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHHH
Confidence            3455666666777888888888888765  32  4444445667777777788887777654322  4566677777777


Q ss_pred             HHhcCChhHHHHHHH----Hhh----------------hCC----CCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC
Q 043204           90 YARAGQLNEAVSLFK----NLS----------------QFN----CVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~----~~~----------------~~~----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      +.+..+++.|..++.    .+.                ..+    .......+-.-...|....+.++|...|.+.... 
T Consensus        92 l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~-  170 (611)
T KOG1173|consen   92 LVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA-  170 (611)
T ss_pred             HHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc-
Confidence            777778888777777    110                001    1111222222234555666677777777665432 


Q ss_pred             CCcchHHHHHH---HHHHHhh-----------------c-CCHHHHHHHHHHh----hh------------CCCCCCHhh
Q 043204          146 EVKSRIQSLNL---LMDVLCQ-----------------C-RRSDLALHVFQEM----DF------------QGCYPDRES  188 (504)
Q Consensus       146 ~~~~~~~~~~~---l~~~~~~-----------------~-~~~~~a~~~~~~~----~~------------~~~~p~~~~  188 (504)
                          |+..+..   ++....-                 . .+.+.-..+|+-.    ..            .+..-+...
T Consensus       171 ----D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dl  246 (611)
T KOG1173|consen  171 ----DAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDL  246 (611)
T ss_pred             ----chhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHH
Confidence                2222221   1111100                 1 1112222222211    00            012223333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhc
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDL  268 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  268 (504)
                      ...-..-+...+++.+..++.+..+   ..  .++....+..-|.++...|+..+-..+=.++.+.  -|.....+..++
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~ll---e~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~aVg  319 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELL---EK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFAVG  319 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHH---hh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhhHH
Confidence            4444455667888999999888874   22  2344555666677888888888888777888775  566777777778


Q ss_pred             cccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHH
Q 043204          269 CPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVD  348 (504)
Q Consensus       269 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  348 (504)
                      ..|...|...+|.+.|.+....+.. =...|-.+...++..+..++|+..+...-+.=. -...-+--+.--|.+.++.+
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~-G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMP-GCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhcc-CCcchHHHHHHHHHHhccHH
Confidence            8888889999999999888765433 345677888888888999999998887766311 11122233445678889999


Q ss_pred             HHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcC-CCC----chhhHHHHHHHHhhcCcHHHHH
Q 043204          349 EALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVG-CVA----NGETYGILVDGLCRDGRFLEAS  423 (504)
Q Consensus       349 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~p----~~~~~~~l~~~~~~~g~~~~A~  423 (504)
                      .|.+.|.+++...  +.|+...+-+.-.....+.+.+|..+|+.....-. +.+    -..+++.|..+|.+.+.+++|.
T Consensus       398 LAe~Ff~~A~ai~--P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  398 LAEKFFKQALAIA--PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHhcC--CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            9999998866654  45666677666666778899999999998763211 111    2345788999999999999999


Q ss_pred             HHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 043204          424 RVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASV  483 (504)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~  483 (504)
                      ..+++..... +.+..++.++.-.|...|+++.|.+.|.+.+  .+.|+..+...++..+
T Consensus       476 ~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  476 DYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHH
Confidence            9999998864 6788899999999999999999999999998  7789998888877754

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

Probab=99.42  E-value=6.6e-08  Score=87.63  Aligned_cols=222  Identities=9%  Similarity=0.054  Sum_probs=114.7

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhc
Q 043204          231 LLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSL-ASYSAMAIDLYNE  309 (504)
Q Consensus       231 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~  309 (504)
                      .++.--..|-++....+++.++...+..|....+  ...++....-++++.+++++-+..-..|+. ..|++.+.-+.+.
T Consensus       483 y~DleEs~gtfestk~vYdriidLriaTPqii~N--yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~r  560 (835)
T KOG2047|consen  483 YADLEESLGTFESTKAVYDRIIDLRIATPQIIIN--YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKR  560 (835)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH--HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHH
Confidence            3333334456666666666666654432222221  122334444556666666555444333433 3455555444443


Q ss_pred             ---CChhHHHHHHHHHHHCCCCcchhhHHHHHH--HHhcCCCHHHHHHHHHHHHhcCCCCcc--HHHHHHHHHHHHhcCC
Q 043204          310 ---GRIVEGDKVLDEMRTKGFWPSLVMYEAKLA--ALFKDGMVDEALEVIEEEMVKGTFVPT--VRVYNILLKGLCDAGN  382 (504)
Q Consensus       310 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~  382 (504)
                         ..++.|..+|++..+ |++|...-+--|+-  .--+.|....|+.+++++-..  +++.  ...|+..|.--+..=-
T Consensus       561 ygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~--v~~a~~l~myni~I~kaae~yG  637 (835)
T KOG2047|consen  561 YGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA--VKEAQRLDMYNIYIKKAAEIYG  637 (835)
T ss_pred             hcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHHhC
Confidence               457777777777777 55543322222221  112346667777777763222  2222  2356666654444434


Q ss_pred             hHHHHHHHHHHHHhcCCCCchhhHH---HHHHHHhhcCcHHHHHHHHHHHHhc-CcCCCcchHHHHHHHHHccCCHHHHH
Q 043204          383 SAVAVMYLKKMSKQVGCVANGETYG---ILVDGLCRDGRFLEASRVLEEMLIR-SYWPCVETYNVLIRGLCSIGKQYEAV  458 (504)
Q Consensus       383 ~~~a~~~~~~~~~~~~~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~  458 (504)
                      +.....+|++..+.   -|+...-.   -..+.-.+.|.+++|..++.-..+- .-..+...|.+.=.-=.++|+-+...
T Consensus       638 v~~TR~iYekaIe~---Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~k  714 (835)
T KOG2047|consen  638 VPRTREIYEKAIES---LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYK  714 (835)
T ss_pred             CcccHHHHHHHHHh---CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHH
Confidence            45556667666653   34433322   2334445678888888888766553 11224455766666667788844444


Q ss_pred             HH
Q 043204          459 MW  460 (504)
Q Consensus       459 ~~  460 (504)
                      ++
T Consensus       715 eM  716 (835)
T KOG2047|consen  715 EM  716 (835)
T ss_pred             HH
Confidence            43

>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=99.41  E-value=1.6e-08  Score=93.83  Aligned_cols=292  Identities=10%  Similarity=0.048  Sum_probs=191.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc-
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA-   93 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-   93 (504)
                      ..++...|++++|++.++.....-+   .....+......+.+.|+.++|..++..+.+.+ |.|..-|..+..+.... 
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~---Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQIL---DKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCC---CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhc
Confidence            4567889999999999988776533   256667788899999999999999999999987 44444455555555322 


Q ss_pred             ----CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH-HHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           94 ----GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA-AHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        94 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                          .+.+...++|+++.+.-  |...+...+.-.+.....+.. +...+.....+ |+++   +|+.|-..|....+.+
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~K-gvPs---lF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRK-GVPS---LFSNLKPLYKDPEKAA  160 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhc-CCch---HHHHHHHHHcChhHHH
Confidence                25677788888887654  222222222222222233433 33334444433 4443   5677777777666666


Q ss_pred             HHHHHHHHhhhC----C----------CCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHH
Q 043204          169 LALHVFQEMDFQ----G----------CYPDR--ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTL  231 (504)
Q Consensus       169 ~a~~~~~~~~~~----~----------~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l  231 (504)
                      -..+++......    +          -.|+.  .++..+...|...|++++|++++++.    ...  .|+ +..|..-
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~a----I~h--tPt~~ely~~K  234 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKA----IEH--TPTLVELYMTK  234 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH----Hhc--CCCcHHHHHHH
Confidence            666666655432    1          12333  34566677788899999999999877    444  344 6678888


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhh--------HHHHH
Q 043204          232 LFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLAS--------YSAMA  303 (504)
Q Consensus       232 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------~~~ll  303 (504)
                      .+.+-+.|++.+|.+.++.....  .+.+...++-....+.+.|+++.|.+++......+..|-...        .....
T Consensus       235 arilKh~G~~~~Aa~~~~~Ar~L--D~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a  312 (517)
T PF12569_consen  235 ARILKHAGDLKEAAEAMDEAREL--DLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECA  312 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhC--ChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHH
Confidence            88899999999999999988775  446666677777777788888888888877776654332211        12334


Q ss_pred             HHHHhcCChhHHHHHHHHHHH
Q 043204          304 IDLYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       304 ~~~~~~~~~~~a~~~~~~~~~  324 (504)
                      .+|.+.|++..|+..|..+.+
T Consensus       313 ~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  313 EAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            566666777777766655544

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 [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=7.1e-13  Score=80.86  Aligned_cols=50  Identities=34%  Similarity=0.687  Sum_probs=38.2

Q ss_pred             chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043204          149 SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN  198 (504)
Q Consensus       149 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  198 (504)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            57777777777777777777777777777777777777777777777653

>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=99.40  E-value=2.1e-09  Score=99.47  Aligned_cols=299  Identities=13%  Similarity=0.093  Sum_probs=175.8

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc-
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE-  128 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-  128 (504)
                      -....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.++ .+..-|..+..+..-. 
T Consensus         9 Y~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen    9 YKNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhc
Confidence            3446678899999999999876544 244556678888999999999999999999999873 2233444444444222 


Q ss_pred             ----chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCH-HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          129 ----SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS-DLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       129 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                          .+.+....+|+++....   |.......+.-.+..-..+ ..+..++..+...|++   .+|+.|-..|....+.+
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y---p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY---PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAA  160 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC---ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHH
Confidence                35677788888886553   2222222222222222223 3455667777888865   45777777777666666


Q ss_pred             HHHHHHHHHHHHHhhCC----------CCcCH--HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhcccc
Q 043204          204 EATHLLYSMFWRISQKG----------SGEDI--VIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPC  271 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~----------~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  271 (504)
                      -..+++......+...+          -.|+.  .++.-+...|...|++++|++++++.+..  .|+....+..     
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~-----  233 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMT-----  233 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHH-----
Confidence            66666666644332222          12333  35566778888999999999999998886  3443444444     


Q ss_pred             CCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHH
Q 043204          272 NDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEAL  351 (504)
Q Consensus       272 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  351 (504)
                                                    -...+-+.|++.+|.+.++..+..+.. |...-+-.+..+.+.|++++|.
T Consensus       234 ------------------------------KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~  282 (517)
T PF12569_consen  234 ------------------------------KARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAE  282 (517)
T ss_pred             ------------------------------HHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHH
Confidence                                          444444455555555555555554332 4444444445555555555555


Q ss_pred             HHHHHHHhcCCCCccHHH--------HHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          352 EVIEEEMVKGTFVPTVRV--------YNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      +++.. ..+.+..|....        ......+|.+.|++..|++.|..+.+
T Consensus       283 ~~~~~-Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  283 KTASL-FTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHh-hcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            55554 333222221111        12233455555666655555555443

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.39  E-value=1.3e-08  Score=85.45  Aligned_cols=420  Identities=11%  Similarity=0.037  Sum_probs=219.5

Q ss_pred             HHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchH
Q 043204           52 IGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKL  131 (504)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  131 (504)
                      +.-+...+++..|+.+++.-...+-+....+-.-+..++.+.|++++|...|..+.+.+ .++...+..|.-.+.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            44456677899999999887755522222344445677789999999999999887755 44466777777777888999


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043204          132 EAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYS  211 (504)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  211 (504)
                      .+|..+-.+..+.      ...-..|+..--+.++-++...+-+.+.+.     ..---+|.+.....-.+++|.++|..
T Consensus       108 ~eA~~~~~ka~k~------pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkr  176 (557)
T KOG3785|consen  108 IEAKSIAEKAPKT------PLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKR  176 (557)
T ss_pred             HHHHHHHhhCCCC------hHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            9999888766432      223344555666778888877777766642     23334455555566688999999998


Q ss_pred             HHHHHhhCCCCcCHHHHHH-HHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          212 MFWRISQKGSGEDIVIYRT-LLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      +    ...  .|.....|. +.-+|.+..-++-+.++++--++.  .|++.....+..+...+.-+-..|+.-..++...
T Consensus       177 v----L~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN  248 (557)
T KOG3785|consen  177 V----LQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADN  248 (557)
T ss_pred             H----Hhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhc
Confidence            8    333  223333333 345678888888888888887765  3455555554443333322222222222222221


Q ss_pred             CCC--------------------------C-----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHH-
Q 043204          291 GGI--------------------------P-----SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKL-  338 (504)
Q Consensus       291 ~~~--------------------------~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-  338 (504)
                      +-.                          |     -+..-..++--|.+.+++.+|..+.+++.-.  .|.......++ 
T Consensus       249 ~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~  326 (557)
T KOG3785|consen  249 IDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVF  326 (557)
T ss_pred             ccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHH
Confidence            110                          0     0011112222333445555554444333211  11111111111 


Q ss_pred             ----HHHhcCCCHHHHHHHHHHHHhcCCCCcc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHH
Q 043204          339 ----AALFKDGMVDEALEVIEEEMVKGTFVPT-VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGL  413 (504)
Q Consensus       339 ----~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  413 (504)
                          +-........-|.+.|+- .-..+..-| +.--.++..++.-..++++.+.+++.+..- -...|...+ .+..++
T Consensus       327 aalGQe~gSreHlKiAqqffql-VG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~-N~AQAk  403 (557)
T KOG3785|consen  327 AALGQETGSREHLKIAQQFFQL-VGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNL-NLAQAK  403 (557)
T ss_pred             HHhhhhcCcHHHHHHHHHHHHH-hcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhh-HHHHHH
Confidence                111111123333333332 222222211 112223334444445555555555555442 222233333 355666


Q ss_pred             hhcCcHHHHHHHHHHHHhcCcCCCcchHH-HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhH
Q 043204          414 CRDGRFLEASRVLEEMLIRSYWPCVETYN-VLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNV  492 (504)
Q Consensus       414 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  492 (504)
                      +..|++.+|+++|-++....++ |..+|. .|.++|.+.+++.-|..++-++   +...+..++..+|..-|-..+.+--
T Consensus       404 ~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~---~t~~e~fsLLqlIAn~CYk~~eFyy  479 (557)
T KOG3785|consen  404 LATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKT---NTPSERFSLLQLIANDCYKANEFYY  479 (557)
T ss_pred             HHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhc---CCchhHHHHHHHHHHHHHHHHHHHH
Confidence            6677777777777665543332 334443 3445666777776665544433   3333444444444333333332444


Q ss_pred             HHHHHHHh
Q 043204          493 CRKTLEQL  500 (504)
Q Consensus       493 a~~~~~~~  500 (504)
                      |-+.|+.+
T Consensus       480 aaKAFd~l  487 (557)
T KOG3785|consen  480 AAKAFDEL  487 (557)
T ss_pred             HHHhhhHH
Confidence            44444433

>PRK12370 invasion protein regulator; Provisional

Probab=99.37  E-value=1e-09  Score=105.17  Aligned_cols=248  Identities=14%  Similarity=0.099  Sum_probs=132.1

Q ss_pred             CCHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHH---------hcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPD-RESYHILMKGLC---------NDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFA  234 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  234 (504)
                      ++.++|..+|++..+..  |+ ...|..+..++.         ..+++++|...+++.    .+.... +...+..+...
T Consensus       275 ~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A----l~ldP~-~~~a~~~lg~~  347 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA----TELDHN-NPQALGLLGLI  347 (553)
T ss_pred             HHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH----HhcCCC-CHHHHHHHHHH
Confidence            45677788887777653  33 344544444332         223467788887777    443322 56667777777


Q ss_pred             HHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 043204          235 LCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVE  314 (504)
Q Consensus       235 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  314 (504)
                      +...|++++|...|++..+.+  |+                                   +...+..+...+...|++++
T Consensus       348 ~~~~g~~~~A~~~~~~Al~l~--P~-----------------------------------~~~a~~~lg~~l~~~G~~~e  390 (553)
T PRK12370        348 NTIHSEYIVGSLLFKQANLLS--PI-----------------------------------SADIKYYYGWNLFMAGQLEE  390 (553)
T ss_pred             HHHccCHHHHHHHHHHHHHhC--CC-----------------------------------CHHHHHHHHHHHHHCCCHHH
Confidence            777888888888888887763  22                                   33444455555666666666


Q ss_pred             HHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCc-cHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043204          315 GDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP-TVRVYNILLKGLCDAGNSAVAVMYLKKM  393 (504)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  393 (504)
                      |...+++..+..+. +...+..++..+...|++++|...+++.+...  .| +...+..+..++...|+.++|...+.++
T Consensus       391 Ai~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        391 ALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             HHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            66666666665432 22222223333444566666666666533332  12 2333444555566666666666666665


Q ss_pred             HHhcCCCCch-hhHHHHHHHHhhcCcHHHHHHHHHHHHhc-CcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          394 SKQVGCVANG-ETYGILVDGLCRDGRFLEASRVLEEMLIR-SYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       394 ~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                      ...   .|+. ...+.+...|...|  ++|...++.+.+. ...+....+  +-..+.-.|+.+.+..+ +++.+.
T Consensus       468 ~~~---~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        468 STQ---EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             hhc---cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            432   2332 22333444455555  3555555555443 112222222  22233444555555444 555543

>PF13041 PPR_2: PPR repeat family

Probab=99.37  E-value=2e-12  Score=78.87  Aligned_cols=50  Identities=38%  Similarity=0.612  Sum_probs=32.8

Q ss_pred             CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 043204          436 PCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCC  485 (504)
Q Consensus       436 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  485 (504)
                      ||..+|++++.+|++.|++++|.++|++|.+.|+.||..||+.++++||+
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            56666666666666666666666666666666666666666666666553

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.36  E-value=2e-09  Score=98.37  Aligned_cols=252  Identities=18%  Similarity=0.084  Sum_probs=170.1

Q ss_pred             CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC-----C-CCccH-HHHHHHHHHHHhcchHHHHHHHHHHhhcC---
Q 043204           75 SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF-----N-CVNWT-QSFNTLLKEMVKESKLEAAHILFLRSCYG---  144 (504)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---  144 (504)
                      +.|.-..+...+...|...|+++.|+.+++...+.     | ..|.. ...+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            33334456777899999999999999999976653     1 12222 33455777888999999999999887531   


Q ss_pred             --CCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-----CC-CCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043204          145 --WEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-----GC-YPDR-ESYHILMKGLCNDRRLNEATHLLYSMFW  214 (504)
Q Consensus       145 --~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  214 (504)
                        +...| -..+++.|...|.+.|++++|...+++..+-     |. .|.. .-++.+...+...+++++|..+++...+
T Consensus       274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~  353 (508)
T KOG1840|consen  274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALK  353 (508)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence              12233 3567888888999999999998888766431     21 1222 2356667778899999999999998876


Q ss_pred             HHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          215 RISQKGSGED----IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       215 ~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      .+.+. +.++    ..+++.|...|...|++++|.++++++++......                             ..
T Consensus       354 i~~~~-~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~-----------------------------~~  403 (508)
T KOG1840|consen  354 IYLDA-PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELL-----------------------------GK  403 (508)
T ss_pred             HHHhh-ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcc-----------------------------cC
Confidence            65422 2222    46789999999999999999999999876521100                             00


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH----CCC--CcchhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          291 GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT----KGF--WPSLVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       291 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      ...-....++.+...|.+.+++++|.++|.+...    .|+  +-...+|..|...|...|+++.|.++.+.
T Consensus       404 ~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~  475 (508)
T KOG1840|consen  404 KDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEK  475 (508)
T ss_pred             cChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            0011234567777788888888888888876543    221  11234556666666666666666666554

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

Probab=99.35  E-value=3.1e-10  Score=93.75  Aligned_cols=231  Identities=13%  Similarity=0.038  Sum_probs=171.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      +.+.++|.+.|.+.+|.+.|+...+....  +.||..|-+.|.+..+...|+.+|.+-.+.  .+-|+....-+.+.+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~--~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPH--PDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCc--hhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            67788899999999999999887776544  457778888999999999999999887755  34455555566777888


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH
Q 043204          164 CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD  243 (504)
Q Consensus       164 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  243 (504)
                      .++.++|.++|+...+.. +.++.....+...|.-.++++-|+.+|+.+    .+.|.. +...|+.+.-+|.-.++++-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRi----LqmG~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRI----LQMGAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHH----HHhcCC-ChHHHhhHHHHHHhhcchhh
Confidence            899999999999888763 235566666777788888999999999888    788876 77888888888888899999


Q ss_pred             HHHHHHHHHHcCCCCC-cchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 043204          244 AMQILEKILRKGLKAP-KSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEM  322 (504)
Q Consensus       244 a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  322 (504)
                      ++.-|+.....--.|. ....+..+.......||+..|.+.|+-.+..+.. +...++.+...-.+.|++++|..++...
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            9988888876533222 2233333466666777777777777777665544 4566666666666667777777777766


Q ss_pred             HHC
Q 043204          323 RTK  325 (504)
Q Consensus       323 ~~~  325 (504)
                      ...
T Consensus       456 ~s~  458 (478)
T KOG1129|consen  456 KSV  458 (478)
T ss_pred             hhh
Confidence            654

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

Probab=99.34  E-value=7.2e-10  Score=91.63  Aligned_cols=228  Identities=11%  Similarity=-0.017  Sum_probs=142.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFA  234 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  234 (504)
                      +.+..+|.+.|-+.+|.+.|+.-.+.  .|-+.||..|-++|.+..++..|+.++.+.    .+. .+-|+....-+.+.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~g----ld~-fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEG----LDS-FPFDVTYLLGQARI  299 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhh----hhc-CCchhhhhhhhHHH
Confidence            55777888888888888888877766  566677888888888888888888887766    332 23344444556677


Q ss_pred             HHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 043204          235 LCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVE  314 (504)
Q Consensus       235 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  314 (504)
                      +-..++.++|.++++...+.  .|.+......+...+.-.++++.|+..++++++.|.. +...|+.+.-+|.-.+++|-
T Consensus       300 ~eam~~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhh
Confidence            77778888888888887765  3344444444455555566666666666666666665 55666666656666666666


Q ss_pred             HHHHHHHHHHCCCCc--chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHH
Q 043204          315 GDKVLDEMRTKGFWP--SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKK  392 (504)
Q Consensus       315 a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  392 (504)
                      ++.-|.+....--.|  -..+|-.+.......|++..|.+.|+-++...  ..+...++.|.-.-.+.|++++|..+++.
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d--~~h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD--AQHGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC--cchHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            666666655532222  22345555555556666666666666433322  23344555555555566666666666665


Q ss_pred             HH
Q 043204          393 MS  394 (504)
Q Consensus       393 ~~  394 (504)
                      ..
T Consensus       455 A~  456 (478)
T KOG1129|consen  455 AK  456 (478)
T ss_pred             hh
Confidence            54

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

Probab=99.34  E-value=2.9e-07  Score=85.44  Aligned_cols=384  Identities=15%  Similarity=0.042  Sum_probs=222.1

Q ss_pred             CCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH-h
Q 043204          109 FNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR-E  187 (504)
Q Consensus       109 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~  187 (504)
                      ..+..+...|..+.-+....|+++.+.+.|++....  .-.....|+.+...|...|.-..|..+++.-......|+. .
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~--~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF--SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh--hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            344455667777777777778888887777776532  2234556777777777777777777777766544322332 2


Q ss_pred             hHHHHHHHHH-hcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc-----------CchhHHHHHHHHHHHcC
Q 043204          188 SYHILMKGLC-NDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ-----------GKIQDAMQILEKILRKG  255 (504)
Q Consensus       188 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~  255 (504)
                      .+-..-..|. +.+..++++.+-.++........-......|..+.-+|...           ....++.+.+++..+.+
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            3332333333 45666666666665532111111111233444444444321           12345666666666653


Q ss_pred             CCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC-CCC------
Q 043204          256 LKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTK-GFW------  328 (504)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~------  328 (504)
                        |.+......+.--++..++++.|....++.++-+..-+...|..+...+...+++.+|+.+.+..... |..      
T Consensus       475 --~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~  552 (799)
T KOG4162|consen  475 --PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDG  552 (799)
T ss_pred             --CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchh
Confidence              33333333334455666777777777777777755556777777666666667777777776655432 110      


Q ss_pred             ------------cchhhHHHHHHHHh-----------------------cCCCHHHHHHHHHH-------HHhcCC----
Q 043204          329 ------------PSLVMYEAKLAALF-----------------------KDGMVDEALEVIEE-------EMVKGT----  362 (504)
Q Consensus       329 ------------~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~-------~~~~~~----  362 (504)
                                  -...|...++..+-                       ..++..++.+....       -.+..+    
T Consensus       553 ~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~  632 (799)
T KOG4162|consen  553 KIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK  632 (799)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc
Confidence                        00011111111111                       00011111111110       000001    


Q ss_pred             -----CC--cc------HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHH
Q 043204          363 -----FV--PT------VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEM  429 (504)
Q Consensus       363 -----~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  429 (504)
                           ..  |+      ...|......+.+.+..++|...+.+..+.  ..-....|......+...|..++|.+.|...
T Consensus       633 Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~A  710 (799)
T KOG4162|consen  633 LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVA  710 (799)
T ss_pred             cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHH
Confidence                 11  11      123445556677888888888888887653  2334566777777788899999999999988


Q ss_pred             HhcCcCCCcchHHHHHHHHHccCCHHHHHH--HHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhh
Q 043204          430 LIRSYWPCVETYNVLIRGLCSIGKQYEAVM--WLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLS  501 (504)
Q Consensus       430 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~  501 (504)
                      ...+ +-++....++...+.+.|+..-|..  ++..+.+.+ +.+...|..+... .+.-||.++|.+.|....
T Consensus       711 l~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v-~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  711 LALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEV-FKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             HhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHH-HHHccchHHHHHHHHHHH
Confidence            8764 3346677888899999998888888  999998653 3345777777777 444555999999887654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.32  E-value=2.6e-09  Score=97.62  Aligned_cols=251  Identities=18%  Similarity=0.143  Sum_probs=173.8

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhh-CCC-CcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcch
Q 043204          186 RESYHILMKGLCNDRRLNEATHLLYSMFWRISQ-KGS-GEDIV-IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSR  262 (504)
Q Consensus       186 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~-~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  262 (504)
                      ..+...+...|...|+++.|..+++...+.+.+ .|. .|... ..+.+...|...+++++|..+|+++...-.      
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e------  272 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIRE------  272 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH------
Confidence            356666888999999999999999988654322 221 22322 233466788888999999999998876311      


Q ss_pred             hhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC-----CCC-cch-hhHH
Q 043204          263 RHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTK-----GFW-PSL-VMYE  335 (504)
Q Consensus       263 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-~~~~  335 (504)
                                             ...-.....-..+++.|..+|.+.|++++|...++...+-     |.. |.. ..++
T Consensus       273 -----------------------~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~  329 (508)
T KOG1840|consen  273 -----------------------EVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLS  329 (508)
T ss_pred             -----------------------HhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHH
Confidence                                   1100000112356667777888889988888777766441     211 122 3355


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhcCC--CCc----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhc----C-CCC-ch
Q 043204          336 AKLAALFKDGMVDEALEVIEEEMVKGT--FVP----TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQV----G-CVA-NG  403 (504)
Q Consensus       336 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~p-~~  403 (504)
                      .+...|...+++++|..+++..+....  ..+    -..+++.|...|...|++++|.++++++....    + ..+ ..
T Consensus       330 ~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~  409 (508)
T KOG1840|consen  330 ELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVG  409 (508)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhh
Confidence            677778889999999988887544322  122    23578999999999999999999999987652    1 112 23


Q ss_pred             hhHHHHHHHHhhcCcHHHHHHHHHHHHhc--CcCCC----cchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          404 ETYGILVDGLCRDGRFLEASRVLEEMLIR--SYWPC----VETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      ..++.|...|.+.+++.+|.++|.+....  -+.|+    ..+|..|...|.+.|++++|.++.+...
T Consensus       410 ~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  410 KPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            46788889999999999999999876542  11233    3568889999999999999999988876

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

Probab=99.31  E-value=4.3e-08  Score=90.75  Aligned_cols=430  Identities=11%  Similarity=-0.016  Sum_probs=236.9

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC-CCccHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS-CECKDSVFAT   85 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~   85 (504)
                      +...|..|.-++...|+++.+.+.|++....   .-.....|..+...+...|.-..|..+++.-.... .++|...+-.
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~~---~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALPF---SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh---hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            3445666666677777777777777776543   22255567777777777777777777776655432 1233344444


Q ss_pred             HHHHHHh-cCChhHHHHHHHHhhh-----CCCCccHHHHHHHHHHHHhc-----------chHHHHHHHHHHhhcCCCCc
Q 043204           86 AIRTYAR-AGQLNEAVSLFKNLSQ-----FNCVNWTQSFNTLLKEMVKE-----------SKLEAAHILFLRSCYGWEVK  148 (504)
Q Consensus        86 l~~~~~~-~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~  148 (504)
                      .-..|.+ .+..++++..-.+...     .+ ......|..+.-+|...           ....++++.+++..+..+..
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~-~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~d  477 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRS-HLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTD  477 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhh-hhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            4444443 3445555444444333     11 11123333333333322           12345666666666655556


Q ss_pred             chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          149 SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       149 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      |++..|-++  -|+..++.+.|.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+..++.   .|.  |....
T Consensus       478 p~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E---~~~--N~~l~  550 (799)
T KOG4162|consen  478 PLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE---FGD--NHVLM  550 (799)
T ss_pred             chHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH---hhh--hhhhc
Confidence            655544333  35666777777777777776644556677777777777777777777777666422   111  11111


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcCCC-CCcchhhhhhccccCCCCChHHHHHHHHHHH--HcCCCCChhhHHHHHHH
Q 043204          229 RTLLFALCDQGKIQDAMQILEKILRKGLK-APKSRRHRIDLCPCNDGEDIEGAKSLINEAL--IRGGIPSLASYSAMAID  305 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~ll~~  305 (504)
                      ..-+..-...++.+++......++..--. ++.           ...++-...++....+.  .....-...++..+..-
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~-----------q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l  619 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKLALWEAEYGV-----------QQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSL  619 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhH-----------hhhhhhhhhhhhhcccccCcccccccchhhHHHHHH
Confidence            11122222245555555554444332000 000           00000000000000000  00011112222222221


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCc--c------hhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Q 043204          306 LYNEGRIVEGDKVLDEMRTKGFWP--S------LVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGL  377 (504)
Q Consensus       306 ~~~~~~~~~a~~~~~~~~~~~~~~--~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (504)
                      ....+........   +...-+.|  +      ...|......+.+.+..++|...+.++-...  +-....|......+
T Consensus       620 ~a~~~~~~~se~~---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~--~l~~~~~~~~G~~~  694 (799)
T KOG4162|consen  620 VASQLKSAGSELK---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID--PLSASVYYLRGLLL  694 (799)
T ss_pred             HHhhhhhcccccc---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc--hhhHHHHHHhhHHH
Confidence            1111000000000   11111112  2      2345566677888899999987777633322  33445566666677


Q ss_pred             HhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHH--HHHHHHhcCcCCCcchHHHHHHHHHccCCH
Q 043204          378 CDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASR--VLEEMLIRSYWPCVETYNVLIRGLCSIGKQ  454 (504)
Q Consensus       378 ~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  454 (504)
                      ...|..++|.+.|.....   +.|+ +.+..++..++.+.|+..-|..  ++.++.+.+ +.+...|..+...+-+.|+.
T Consensus       695 ~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~  770 (799)
T KOG4162|consen  695 EVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDS  770 (799)
T ss_pred             HHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccch
Confidence            888999999999988774   4565 4678899999999999888888  999999876 56789999999999999999


Q ss_pred             HHHHHHHHHHHHc
Q 043204          455 YEAVMWLEEMISQ  467 (504)
Q Consensus       455 ~~a~~~~~~~~~~  467 (504)
                      +.|.+.|+...+.
T Consensus       771 ~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  771 KQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998854

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

Probab=99.30  E-value=2.7e-09  Score=84.10  Aligned_cols=200  Identities=11%  Similarity=-0.025  Sum_probs=166.6

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      +...|.-.|.+.|+...|..-+++.++.+ |.+..+|..+...|.+.|+.+.|.+.|+...+..+ .+..+.|.....++
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHH
Confidence            45667778899999999999999999987 66777899999999999999999999999887763 34677888888999


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  206 (504)
                      ..|++++|...|++....+....-..+|..+.-+..+.|+.+.|...|++..+.... ...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            999999999999999887766666778899998999999999999999998887432 4566778888889999999999


Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          207 HLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .+++..    ...+. ++....-..|+.-...|+.+.+-++=.++.+.
T Consensus       194 ~~~~~~----~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         194 LYLERY----QQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHH----Hhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            998887    45544 78888888888888889988888877777664

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.28  E-value=1e-07  Score=85.67  Aligned_cols=425  Identities=15%  Similarity=0.064  Sum_probs=238.1

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      ..-+=++.+...+++++|.+...++...+ +.+...+..-+-+.++.+.++.|+.+.+.-..  ...+..-+-.-.-+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHH
Confidence            33444677788999999999999999887 66777788888889999999999965543211  0111111112223345


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH-hcCCHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLC-NDRRLNEA  205 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~~~~~~a  205 (504)
                      +.+..++|+..++.....     +..+...-...+.+.|++++|+++|+.+.+++.. +   +...+++-. ..+-.-.+
T Consensus        91 rlnk~Dealk~~~~~~~~-----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d---~d~~~r~nl~a~~a~l~~  161 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRL-----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-D---QDEERRANLLAVAAALQV  161 (652)
T ss_pred             HcccHHHHHHHHhccccc-----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-h---HHHHHHHHHHHHHHhhhH
Confidence            789999999999843221     2234445566788999999999999999877432 2   222222111 11111111


Q ss_pred             HHHHHHHHHHHhhCCCCc--CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC-------------CCcchhhhhhccc
Q 043204          206 THLLYSMFWRISQKGSGE--DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLK-------------APKSRRHRIDLCP  270 (504)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-------------~~~~~~~~~~~~~  270 (504)
                       ++.+       .....|  +...+....-.+...|++.+|+++++...+.+..             ........-+.-+
T Consensus       162 -~~~q-------~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayV  233 (652)
T KOG2376|consen  162 -QLLQ-------SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYV  233 (652)
T ss_pred             -HHHH-------hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHH
Confidence             1122       222222  2222333445677889999999999998432211             0111222234455


Q ss_pred             cCCCCChHHHHHHHHHHHHcCCCCChhhHHHH---HHHHHhcCChhH--HHHHHHHHHHCCC-----------CcchhhH
Q 043204          271 CNDGEDIEGAKSLINEALIRGGIPSLASYSAM---AIDLYNEGRIVE--GDKVLDEMRTKGF-----------WPSLVMY  334 (504)
Q Consensus       271 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---l~~~~~~~~~~~--a~~~~~~~~~~~~-----------~~~~~~~  334 (504)
                      +...|+.++|..++...++.+.. |.......   |.++....++..  ++..++.......           .-....-
T Consensus       234 lQ~~Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N  312 (652)
T KOG2376|consen  234 LQLQGQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRN  312 (652)
T ss_pred             HHHhcchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            66788999999999888877653 33222211   122222222222  2222222211100           0011111


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh-c-CChHHHHHHHHHHHHhcCCCC-chhhHHHHHH
Q 043204          335 EAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD-A-GNSAVAVMYLKKMSKQVGCVA-NGETYGILVD  411 (504)
Q Consensus       335 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~-~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  411 (504)
                      +.++..|.  +..+.+.++...   ..+..|.. .+..++..+.+ . ..+..+.+++....+.  .+- ...+.-.++.
T Consensus       313 ~~lL~l~t--nk~~q~r~~~a~---lp~~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQ  384 (652)
T KOG2376|consen  313 NALLALFT--NKMDQVRELSAS---LPGMSPES-LFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQ  384 (652)
T ss_pred             HHHHHHHh--hhHHHHHHHHHh---CCccCchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHH
Confidence            23333332  333344443322   22233443 44444444332 2 2467788888777654  222 2345556677


Q ss_pred             HHhhcCcHHHHHHHHH--------HHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCCHHHHHHHH-
Q 043204          412 GLCRDGRFLEASRVLE--------EMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ--AKLPDISVWSSLV-  480 (504)
Q Consensus       412 ~~~~~g~~~~A~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~ll-  480 (504)
                      .....|+++.|.+++.        .+.+.+  -.+.+...++..+.+.++.+.|..++.+..+.  .-.+......+++ 
T Consensus       385 l~is~gn~~~A~~il~~~~~~~~ss~~~~~--~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~  462 (652)
T KOG2376|consen  385 LKISQGNPEVALEILSLFLESWKSSILEAK--HLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMR  462 (652)
T ss_pred             HHHhcCCHHHHHHHHHHHhhhhhhhhhhhc--cChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHH
Confidence            7888999999999999        555544  34455667777888888888788887777631  1123333333332 


Q ss_pred             --HHHhcCCCchhHHHHHHHHhhc
Q 043204          481 --ASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       481 --~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                        ..+-..+|+-++|...++++.+
T Consensus       463 ~aa~f~lr~G~~~ea~s~leel~k  486 (652)
T KOG2376|consen  463 EAAEFKLRHGNEEEASSLLEELVK  486 (652)
T ss_pred             HHhHHHHhcCchHHHHHHHHHHHH
Confidence              2233344559999999999876

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

Probab=99.25  E-value=1e-06  Score=78.52  Aligned_cols=149  Identities=17%  Similarity=0.143  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHH
Q 043204          347 VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRV  425 (504)
Q Consensus       347 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~  425 (504)
                      .+.....+++......+.|+. +|..+++...+..-++.|..+|.++.+. +..+ ++.++++++.-|+ .++.+-|.++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tL-v~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrI  423 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTL-VYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRI  423 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCce-ehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHH
Confidence            334444444433333334443 4445555555555566666666666555 4444 4555555555444 3455666666


Q ss_pred             HHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          426 LEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDI--SVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       426 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                      |+--.++ +.-++.--...++-+...++-..+..+|++....++.||.  .+|..+|. |-..-||++.+.++-+++
T Consensus       424 FeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~-yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  424 FELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLE-YESNVGDLNSILKLEKRR  498 (656)
T ss_pred             HHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHH-HHHhcccHHHHHHHHHHH
Confidence            6554443 1122222334455555556656666666666655444443  55666555 344444455555554443

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

Probab=99.25  E-value=2.5e-07  Score=79.50  Aligned_cols=266  Identities=13%  Similarity=0.054  Sum_probs=124.6

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcc
Q 043204          183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIV-IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKS  261 (504)
Q Consensus       183 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  261 (504)
                      +-|......+...+...|+.++|...|++.    +.  +.|+.. ......-.+.+.|+.++...+...+....-  -..
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~----~~--~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~--~ta  300 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSST----LC--ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK--YTA  300 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHH----hh--CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh--cch
Confidence            334445555555555556666655555544    11  222211 111111222344555555555554443210  111


Q ss_pred             hhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHH
Q 043204          262 RRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAAL  341 (504)
Q Consensus       262 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  341 (504)
                      ..+..-++..-...+++.|+.+-...++.+.. +...+-.-...+...++.++|.-.|+..+...+ -+...|..|+++|
T Consensus       301 ~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsY  378 (564)
T KOG1174|consen  301 SHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSY  378 (564)
T ss_pred             hhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHH
Confidence            11122233333445555555555555544322 223333333344444666666666655554321 2455566666666


Q ss_pred             hcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHH-HHHH-hcCChHHHHHHHHHHHHhcCCCCch-hhHHHHHHHHhhcCc
Q 043204          342 FKDGMVDEALEVIEEEMVKGTFVPTVRVYNILL-KGLC-DAGNSAVAVMYLKKMSKQVGCVANG-ETYGILVDGLCRDGR  418 (504)
Q Consensus       342 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~  418 (504)
                      ...|.+.+|.-.-+..|...  +.+..+.+.+. ..|. ....-++|.+++++-.+   +.|+- ...+.+...+...|.
T Consensus       379 LA~~~~kEA~~~An~~~~~~--~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~  453 (564)
T KOG1174|consen  379 LAQKRFKEANALANWTIRLF--QNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGP  453 (564)
T ss_pred             HhhchHHHHHHHHHHHHHHh--hcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCc
Confidence            66666666655555444432  22333333321 1111 12223455555555442   23432 233445555566666


Q ss_pred             HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          419 FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       419 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      .+++..++++....  .||....+.|.+.+...+.+.+|.+.|...+
T Consensus       454 ~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL  498 (564)
T KOG1174|consen  454 TKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL  498 (564)
T ss_pred             cchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            66666666665553  3566666666666666666666666666665

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.25  E-value=4.2e-08  Score=80.43  Aligned_cols=353  Identities=13%  Similarity=0.058  Sum_probs=182.2

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHH-HHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFAT-AIRT   89 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~   89 (504)
                      +...+..+.+..++..|++++..-.++.|.   +....+.|..+|-...++..|...++++....  |...-|.. -...
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~---~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPR---SRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCcc---chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            566666777778888888888877777554   66677777778888888888888888877663  44333321 2344


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      +-+.+.+..|+++...|.... ..-......-.......+++..+..+.++....+    +..+.+.......+.|+++.
T Consensus        88 LY~A~i~ADALrV~~~~~D~~-~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en----~Ad~~in~gCllykegqyEa  162 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDNP-ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN----EADGQINLGCLLYKEGQYEA  162 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCCH-HHHHHHHHHHHHHhcccccCcchHHHHHhccCCC----ccchhccchheeeccccHHH
Confidence            456677778888777775531 1101111111111224466667777776664221    22333444444567778888


Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc----CHHHHHHHHHHHHhcCc-hhHH
Q 043204          170 ALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE----DIVIYRTLLFALCDQGK-IQDA  244 (504)
Q Consensus       170 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~-~~~a  244 (504)
                      |.+-|+...+-+---....|+..+. ..+.++++.|++...++    ...|++.    ++..-...+++- ..|+ ..-+
T Consensus       163 AvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEI----ieRG~r~HPElgIGm~tegiDvr-svgNt~~lh  236 (459)
T KOG4340|consen  163 AVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEI----IERGIRQHPELGIGMTTEGIDVR-SVGNTLVLH  236 (459)
T ss_pred             HHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHH----HHhhhhcCCccCccceeccCchh-cccchHHHH
Confidence            8887777766533334455665544 45667777777777777    3333221    111000000000 0000 0000


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG-GIPSLASYSAMAIDLYNEGRIVEGDKVLDEMR  323 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  323 (504)
                      ..-+-            ..+.+-.....+.++++.|.+.+..|..+. ...|+.|...+.-. -..+++.+..+-+.-+.
T Consensus       237 ~Sal~------------eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL  303 (459)
T KOG4340|consen  237 QSALV------------EAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLL  303 (459)
T ss_pred             HHHHH------------HHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHH
Confidence            00000            001111233344455555555554443221 12355555544211 11255666666666666


Q ss_pred             HCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC-CccHHHHHHHHHHH-HhcCChHHHHHHHHHHHH
Q 043204          324 TKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF-VPTVRVYNILLKGL-CDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       324 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~  395 (504)
                      ..++ ....||..++-.||+..-++-|-.++-+ -..... -.+...|+. +.++ .-...++++.+-++.+.+
T Consensus       304 ~~nP-fP~ETFANlLllyCKNeyf~lAADvLAE-n~~lTyk~L~~Yly~L-LdaLIt~qT~pEea~KKL~~La~  374 (459)
T KOG4340|consen  304 QQNP-FPPETFANLLLLYCKNEYFDLAADVLAE-NAHLTYKFLTPYLYDL-LDALITCQTAPEEAFKKLDGLAG  374 (459)
T ss_pred             hcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhh-CcchhHHHhhHHHHHH-HHHHHhCCCCHHHHHHHHHHHHH
Confidence            6544 3456777788888888888888777654 111000 012222332 2332 234556666666555543

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

Probab=99.25  E-value=3.7e-09  Score=83.32  Aligned_cols=194  Identities=12%  Similarity=-0.032  Sum_probs=166.6

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYA   91 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (504)
                      ..|.-.|...|++..|..-++++++.+|.   +..+|..+...|.+.|..+.|.+-|++..+.. +.+-.+.|.....+|
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs---~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPS---YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            44677899999999999999999999887   88899999999999999999999999999887 777788999999999


Q ss_pred             hcCChhHHHHHHHHhhhCC-CCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           92 RAGQLNEAVSLFKNLSQFN-CVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ..|.+++|...|+...... ..-...+|..+.-+..+.|+.+.|...|++......-.|  .+.-.+.....+.|++..|
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~--~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFP--PALLELARLHYKAGDYAPA  192 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCC--hHHHHHHHHHHhcccchHH
Confidence            9999999999999877543 222356888999999999999999999999886543333  3557788889999999999


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ...++.....+. ++..+.-..|+.-...|+.+.+-++=.++
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            999999998875 89999888899888999998887765554

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

Probab=99.22  E-value=1.1e-06  Score=75.59  Aligned_cols=289  Identities=15%  Similarity=0.050  Sum_probs=209.2

Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHh-hHHHHHHHHHhcCCHHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE-SYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~  206 (504)
                      .++...|...+-.+......+-|+.....+..++...|+.++|+..|+.....+  |+.. ....-.-.+.+.|+.++..
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~  286 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDS  286 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHH
Confidence            455555555555555444566678888999999999999999999999988642  3222 1122223346788888888


Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHH
Q 043204          207 HLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINE  286 (504)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  286 (504)
                      .+...++..     .+-+...|..-.......+++..|+.+-++.++.  .+.....+.+-..+....+.+++|.-.|+.
T Consensus       287 ~L~~~Lf~~-----~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~--~~r~~~alilKG~lL~~~~R~~~A~IaFR~  359 (564)
T KOG1174|consen  287 ALMDYLFAK-----VKYTASHWFVHAQLLYDEKKFERALNFVEKCIDS--EPRNHEALILKGRLLIALERHTQAVIAFRT  359 (564)
T ss_pred             HHHHHHHhh-----hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhcc--CcccchHHHhccHHHHhccchHHHHHHHHH
Confidence            888777421     1112333433344455667899999999988775  456667777778888899999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHH-HHHh-cCCCHHHHHHHHHHHHhcCCCC
Q 043204          287 ALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKL-AALF-KDGMVDEALEVIEEEMVKGTFV  364 (504)
Q Consensus       287 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~  364 (504)
                      .+...+. +...|..++..|...|++.+|...-+..... ++.+..+.+.+. ..+. ...--++|..++++.+..   .
T Consensus       360 Aq~Lap~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~---~  434 (564)
T KOG1174|consen  360 AQMLAPY-RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI---N  434 (564)
T ss_pred             HHhcchh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc---C
Confidence            8865433 6789999999999999999998777665543 223555555442 2232 233457888888875554   4


Q ss_pred             ccH-HHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC
Q 043204          365 PTV-RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       365 ~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  433 (504)
                      |+- ...+.+...|...|..+.++.+++.....   .||....+.|.+.+...+.+++|...|......+
T Consensus       435 P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~---~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  435 PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII---FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             CccHHHHHHHHHHHHhhCccchHHHHHHHHHhh---ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            553 35566777888999999999999998854   7899999999999999999999999999888754

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.20  E-value=1.4e-08  Score=88.98  Aligned_cols=224  Identities=8%  Similarity=-0.021  Sum_probs=156.5

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcc--hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHN--GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      ..+..+.++.-+.++....| ..|+  ...|..+...+...|++++|...|++..+.. +.+...|+.+...+...|+++
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~-~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~  115 (296)
T PRK11189         38 PTLQQEVILARLNQILASRD-LTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFD  115 (296)
T ss_pred             CchHHHHHHHHHHHHHcccc-CCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHH
Confidence            34566788888888887543 2222  3567788888999999999999999999887 667788999999999999999


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHh
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEM  177 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  177 (504)
                      .|...|+...+.++. +..++..+...+...|++++|.+.|++.....+..|.   .......+...++.++|...|++.
T Consensus       116 ~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~---~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        116 AAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPY---RALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH---HHHHHHHHHccCCHHHHHHHHHHH
Confidence            999999999887633 3667888888899999999999999998865333221   222222344567899999999775


Q ss_pred             hhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC--C-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          178 DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS--G-EDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       178 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .... .|+...+ .+.  ....|+...+ +.+..+... .+..+  . .....|..+...+.+.|++++|...|++..+.
T Consensus       192 ~~~~-~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~-~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        192 YEKL-DKEQWGW-NIV--EFYLGKISEE-TLMERLKAG-ATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             HhhC-CccccHH-HHH--HHHccCCCHH-HHHHHHHhc-CCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5432 2332222 222  2334555443 344444110 01111  1 12457888899999999999999999999876


Q ss_pred             C
Q 043204          255 G  255 (504)
Q Consensus       255 ~  255 (504)
                      +
T Consensus       266 ~  266 (296)
T PRK11189        266 N  266 (296)
T ss_pred             C
Confidence            4

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.19  E-value=1.2e-08  Score=89.38  Aligned_cols=190  Identities=11%  Similarity=-0.024  Sum_probs=141.0

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      |..+...|...|++++|...|+++.+..|+   +..+|+.+...+...|++++|.+.|++..+.. +.+..++..+..++
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l  142 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALRPD---MADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            566777888999999999999999999887   78999999999999999999999999999876 55677888899999


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ...|++++|.+.|+...+.++.. . ............++.++|...|.+.....  .|+...+ .+.  ....|+...+
T Consensus       143 ~~~g~~~eA~~~~~~al~~~P~~-~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~--~~~~~~~-~~~--~~~lg~~~~~  215 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQDDPND-P-YRALWLYLAESKLDPKQAKENLKQRYEKL--DKEQWGW-NIV--EFYLGKISEE  215 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCC-H-HHHHHHHHHHccCCHHHHHHHHHHHHhhC--CccccHH-HHH--HHHccCCCHH
Confidence            99999999999999988765332 1 11222223445678999999997755332  2332222 222  2334555443


Q ss_pred             HHHHHHhhhC---CC--C-CCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          171 LHVFQEMDFQ---GC--Y-PDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       171 ~~~~~~~~~~---~~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                       +.+..+.+.   .+  . .....|..+...+.+.|++++|...|++.
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~A  262 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLA  262 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             344444421   11  1 12357888999999999999999999988

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.18  E-value=4e-07  Score=74.86  Aligned_cols=360  Identities=13%  Similarity=0.104  Sum_probs=222.0

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHH-HHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFN-TLLK  123 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~  123 (504)
                      ...+.+.+..+.+..++++|++++..-.+.. +.+....+.+..+|-...++..|-..++++....  |...-|. .-..
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQ   86 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHH
Confidence            3446777888888999999999999988876 4466778889999999999999999999997754  3333332 2345


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      .+.+.+.+..|+++...+...........  ..-.......+|+..+..+.++....|   +..+.+.......+.|+++
T Consensus        87 SLY~A~i~ADALrV~~~~~D~~~L~~~~l--qLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDNPALHSRVL--QLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCCHHHHHHHH--HHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence            56678899999999988865321111111  111112345788999999999887543   4455555555567899999


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL  283 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  283 (504)
                      .|.+-|+...   .-.|..| ...|+..+ +..+.|+++.|++...+++++|+..............- ..+.+.....+
T Consensus       162 aAvqkFqaAl---qvsGyqp-llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegi-DvrsvgNt~~l  235 (459)
T KOG4340|consen  162 AAVQKFQAAL---QVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGI-DVRSVGNTLVL  235 (459)
T ss_pred             HHHHHHHHHH---hhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccC-chhcccchHHH
Confidence            9999999883   4455554 55676554 45567899999999999999987633222111110000 00111111111


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          284 INEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG-FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                      ....       -...+|.-...+.+.++.+.|.+.+-.|.-+. ...|++|...+.-.-.. +++-...+-+.-.+....
T Consensus       236 h~Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~-~~p~~g~~KLqFLL~~nP  307 (459)
T KOG4340|consen  236 HQSA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMD-ARPTEGFEKLQFLLQQNP  307 (459)
T ss_pred             HHHH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhccc-CCccccHHHHHHHHhcCC
Confidence            1111       12334444455677899999999888885432 33467776655433222 233333333333233443


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHh-hcCcHHHHHHHHHHH
Q 043204          363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLC-RDGRFLEASRVLEEM  429 (504)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~  429 (504)
                      +  ...||..++-.||++.-++.|-.++.+-....-.-.+...|+. ++++. ..-..++|.+-++.+
T Consensus       308 f--P~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~L-LdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  308 F--PPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDL-LDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             C--ChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHH-HHHHHhCCCCHHHHHHHHHHH
Confidence            3  3358888899999999999998888764322011123344443 33332 234566666555544

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

Probab=99.17  E-value=3.6e-08  Score=90.06  Aligned_cols=305  Identities=9%  Similarity=-0.031  Sum_probs=158.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcch-hcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNG-PVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      |..+...+...|+++.+...+....+..|. .++. .........+...|++++|.+++++..+.. |.+...+.. ...
T Consensus         9 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~   85 (355)
T cd05804           9 HAAAALLLLLGGERPAAAAKAAAAAQALAA-RATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHH
Confidence            444555555667777777777666665442 1121 122222344556677777777777776654 344444432 112


Q ss_pred             HH----hcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           90 YA----RAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        90 ~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      +.    ..+....+.+.+... ....+........+...+...|++++|...+++.....  +.+...+..+...+...|
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcC
Confidence            22    234444455544431 11212223334455556677777777777777776542  223455666777777777


Q ss_pred             CHHHHHHHHHHhhhCCC-CCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC-CcCHH---HHHHHHHHHHhc
Q 043204          166 RSDLALHVFQEMDFQGC-YPDR--ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS-GEDIV---IYRTLLFALCDQ  238 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~---~~~~l~~~~~~~  238 (504)
                      ++++|...+++...... .|+.  ..|..+...+...|++++|..++++.    ..... .+...   ....++.-+...
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~----~~~~~~~~~~~~~~~~~~~l~~~~~~  238 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTH----IAPSAESDPALDLLDAASLLWRLELA  238 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHH----hccccCCChHHHHhhHHHHHHHHHhc
Confidence            77777777777665421 1222  23445666777777777777777776    32222 12221   111444444444


Q ss_pred             CchhHHHHH--HHHHHHcCCC-CCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCC------CChhhHHHHHH--HHH
Q 043204          239 GKIQDAMQI--LEKILRKGLK-APKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGI------PSLASYSAMAI--DLY  307 (504)
Q Consensus       239 g~~~~a~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~ll~--~~~  307 (504)
                      |....+.++  +......... +............+...|+.+.|..++..+......      .....-..++.  ++.
T Consensus       239 g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~  318 (355)
T cd05804         239 GHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAF  318 (355)
T ss_pred             CCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHH
Confidence            543333333  2111111100 111111123345556667777777777766542211      11222222333  345


Q ss_pred             hcCChhHHHHHHHHHHHC
Q 043204          308 NEGRIVEGDKVLDEMRTK  325 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~  325 (504)
                      ..|+.+.|.+.+......
T Consensus       319 ~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         319 AEGNYATALELLGPVRDD  336 (355)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            669999999998887765

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.

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

Probab=99.15  E-value=3e-07  Score=84.09  Aligned_cols=308  Identities=13%  Similarity=-0.001  Sum_probs=189.2

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCC-CccH-HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHH-
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSC-ECKD-SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT-  120 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  120 (504)
                      ....|..+...+...|+.+.+...+....+... .++. .........+...|++++|.+.++...+..+ .+...+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~~   83 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYP-RDLLALKLH   83 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHh
Confidence            455677777778788888887777776654431 1222 2223334456778999999999999887653 33334332 


Q ss_pred             --HHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043204          121 --LLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN  198 (504)
Q Consensus       121 --ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  198 (504)
                        ........+..+.+.+.+....  ...+........+...+...|++++|.+.+++..+.. +.+...+..+..++..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~  160 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLWA--PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEM  160 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhccC--cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHH
Confidence              1222223455566666665521  1222234445566678899999999999999999875 3356677888889999


Q ss_pred             cCCHHHHHHHHHHHHHHHhhCCC-CcC--HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcch-h-hh-hhccccC
Q 043204          199 DRRLNEATHLLYSMFWRISQKGS-GED--IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSR-R-HR-IDLCPCN  272 (504)
Q Consensus       199 ~~~~~~a~~~~~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~-~~-~~~~~~~  272 (504)
                      .|++++|...+++.    ..... .++  ...|..+...+...|++++|..++++.......+.... . .. .+.....
T Consensus       161 ~g~~~eA~~~l~~~----l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  236 (355)
T cd05804         161 QGRFKEGIAFMESW----RDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLE  236 (355)
T ss_pred             cCCHHHHHHHHHhh----hhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHH
Confidence            99999999999988    33322 233  34577899999999999999999999865432112111 1 11 2222333


Q ss_pred             CCCChHHHHHH--H-HHHHHcCCCCChhhHH--HHHHHHHhcCChhHHHHHHHHHHHCCCC------c--chhhHHHHHH
Q 043204          273 DGEDIEGAKSL--I-NEALIRGGIPSLASYS--AMAIDLYNEGRIVEGDKVLDEMRTKGFW------P--SLVMYEAKLA  339 (504)
Q Consensus       273 ~~~~~~~a~~~--~-~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~--~~~~~~~l~~  339 (504)
                      ..|..+.+.+.  + ......... ....+.  ....++...|+.+.|..+++.+......      .  .........-
T Consensus       237 ~~g~~~~~~~w~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~  315 (355)
T cd05804         237 LAGHVDVGDRWEDLADYAAWHFPD-HGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEAL  315 (355)
T ss_pred             hcCCCChHHHHHHHHHHHHhhcCc-ccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHH
Confidence            33333333222  2 221111111 122222  4555666779999999999988763211      0  1122222233


Q ss_pred             HHhcCCCHHHHHHHHHHHHhc
Q 043204          340 ALFKDGMVDEALEVIEEEMVK  360 (504)
Q Consensus       340 ~~~~~~~~~~a~~~~~~~~~~  360 (504)
                      ++...|+.++|.+.+..++..
T Consensus       316 ~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         316 YAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            456899999999999885543

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.14  E-value=8.1e-07  Score=79.20  Aligned_cols=105  Identities=12%  Similarity=0.044  Sum_probs=86.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ   95 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (504)
                      .+....|+++.|+..|-......|+   |...|+.-..+|+..|++++|.+=-.+-.+.. |..+..|+....++.-.|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~---nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT---NHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC---ccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhccc
Confidence            3456789999999999999999886   88999999999999999999998887777776 6667789999999999999


Q ss_pred             hhHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 043204           96 LNEAVSLFKNLSQFNCVNWTQSFNTLLKEM  125 (504)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (504)
                      +++|+..|.+-++... .+...++.+..++
T Consensus        86 ~~eA~~ay~~GL~~d~-~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDP-SNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHHhhcCC-chHHHHHhHHHhh
Confidence            9999999999887652 3344445555554

>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=9.2e-08  Score=82.61  Aligned_cols=250  Identities=15%  Similarity=0.136  Sum_probs=150.7

Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                      -+.-.|++..++.-.+ ........+......+.+++...|+.+.++.   .+...  ..|.......+...+...++-+
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~--~~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKS--SSPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TT--SSCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccC--CChhHHHHHHHHHHHhCccchH
Confidence            3344566666665444 3333323334444556666667776654432   22222  2445555555554444435556


Q ss_pred             HHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHH
Q 043204          169 LALHVFQEMDFQGCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQI  247 (504)
Q Consensus       169 ~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  247 (504)
                      .+..-+++.......+ +..........+...|++++|++++..        +  .+.......+.+|.+.++++.|.+.
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~--------~--~~lE~~al~Vqi~L~~~R~dlA~k~  153 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK--------G--GSLELLALAVQILLKMNRPDLAEKE  153 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT--------T--TCHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc--------c--CcccHHHHHHHHHHHcCCHHHHHHH
Confidence            6666665554433222 222233333456678888888877542        2  3566777788889999999999999


Q ss_pred             HHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHH
Q 043204          248 LEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYN----EGRIVEGDKVLDEMR  323 (504)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~  323 (504)
                      ++.|.+.+                                       +..+...+..++..    .+.+.+|..+|+++.
T Consensus       154 l~~~~~~~---------------------------------------eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~  194 (290)
T PF04733_consen  154 LKNMQQID---------------------------------------EDSILTQLAEAWVNLATGGEKYQDAFYIFEELS  194 (290)
T ss_dssp             HHHHHCCS---------------------------------------CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHH
T ss_pred             HHHHHhcC---------------------------------------CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence            98887642                                       22333334444433    356899999999987


Q ss_pred             HCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHh
Q 043204          324 TKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNS-AVAVMYLKKMSKQ  396 (504)
Q Consensus       324 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  396 (504)
                      +. ..+++.+.+.+..++...|++++|.+++.+++...  +-+..+...++-+....|+. +.+.+++.++...
T Consensus       195 ~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~--~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  195 DK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD--PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            65 45688888889999999999999999999865544  34556777777777788877 6677888888754

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.

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

Probab=99.07  E-value=3.4e-08  Score=88.44  Aligned_cols=226  Identities=15%  Similarity=0.082  Sum_probs=169.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      ..-+.+.|++.+|.-.|+...+.+|+   +..+|..|...-+..++-..|+..+++..+.. +.|..+.-.|.-.|...|
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~---haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ---HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEG  367 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH---HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhh
Confidence            34566889999999999999999998   99999999999999999999999999999998 777888999999999999


Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHH---------HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTL---------LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l---------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      .-..|++.|+..+...++-   .|...         -..+.....+....++|-++....+..+|..+...|...|--.|
T Consensus       368 ~q~~Al~~L~~Wi~~~p~y---~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNKPKY---VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             hHHHHHHHHHHHHHhCccc---hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            9999999999875543110   00000         01222233445566666666655554455556677777788888


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHH
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a  244 (504)
                      ++++|.+.|+..+.... -|...||.|-..++...+..+|+..|.+.    .+  +.|+ +.....|.-+|...|.+++|
T Consensus       445 efdraiDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rA----Lq--LqP~yVR~RyNlgIS~mNlG~ykEA  517 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRA----LQ--LQPGYVRVRYNLGISCMNLGAYKEA  517 (579)
T ss_pred             HHHHHHHHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHH----Hh--cCCCeeeeehhhhhhhhhhhhHHHH
Confidence            89999998888887642 25678888888888888888888888877    33  3444 33455577778888888888


Q ss_pred             HHHHHHHHHc
Q 043204          245 MQILEKILRK  254 (504)
Q Consensus       245 ~~~~~~~~~~  254 (504)
                      .+.|-..+..
T Consensus       518 ~~hlL~AL~m  527 (579)
T KOG1125|consen  518 VKHLLEALSM  527 (579)
T ss_pred             HHHHHHHHHh
Confidence            8888776553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.06  E-value=1e-06  Score=81.59  Aligned_cols=53  Identities=21%  Similarity=-0.072  Sum_probs=26.0

Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +..+..+.++-|..+-+-..+.. .|..  .-.+..-+-..|++++|.+-+-+..+
T Consensus       971 d~a~d~~afd~afdlari~~k~k-~~~v--hlk~a~~ledegk~edaskhyveaik 1023 (1636)
T KOG3616|consen  971 DFAADNCAFDFAFDLARIAAKDK-MGEV--HLKLAMFLEDEGKFEDASKHYVEAIK 1023 (1636)
T ss_pred             hhhhcccchhhHHHHHHHhhhcc-Cccc--hhHHhhhhhhccchhhhhHhhHHHhh
Confidence            33444555555555554444332 1222  22333344566777777666655553

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

Probab=99.03  E-value=7.4e-06  Score=69.01  Aligned_cols=206  Identities=10%  Similarity=-0.009  Sum_probs=129.1

Q ss_pred             HHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh
Q 043204          158 MDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD  237 (504)
Q Consensus       158 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  237 (504)
                      +..+.-.|+...|+.....+.+-. +-|...|..-..+|...|++..|+.-++..    .+.. ..+..++..+-..+..
T Consensus       162 l~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~a----skLs-~DnTe~~ykis~L~Y~  235 (504)
T KOG0624|consen  162 LKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQA----SKLS-QDNTEGHYKISQLLYT  235 (504)
T ss_pred             HHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHH----Hhcc-ccchHHHHHHHHHHHh
Confidence            334556788888888888887753 236666677777888888888887777665    3332 2245666667777778


Q ss_pred             cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 043204          238 QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDK  317 (504)
Q Consensus       238 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  317 (504)
                      .|+.+.++...++-++.+  |+.                 ......++.+.+.      .---.-+......+++.++.+
T Consensus       236 vgd~~~sL~~iRECLKld--pdH-----------------K~Cf~~YKklkKv------~K~les~e~~ie~~~~t~cle  290 (504)
T KOG0624|consen  236 VGDAENSLKEIRECLKLD--PDH-----------------KLCFPFYKKLKKV------VKSLESAEQAIEEKHWTECLE  290 (504)
T ss_pred             hhhHHHHHHHHHHHHccC--cch-----------------hhHHHHHHHHHHH------HHHHHHHHHHHhhhhHHHHHH
Confidence            888888888887777653  222                 2222222222211      000001123344577777887


Q ss_pred             HHHHHHHCCCCcchh---hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          318 VLDEMRTKGFWPSLV---MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       318 ~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      -.+...+..+.....   .+..+-.++...+++-+|++...+.+...  +.|..++.--..+|.-..+++.|+.-|+...
T Consensus       291 ~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d--~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~  368 (504)
T KOG0624|consen  291 AGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID--PDDVQVLCDRAEAYLGDEMYDDAIHDYEKAL  368 (504)
T ss_pred             HHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC--chHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            777777765442233   33445566777888888888887744332  2347777777788888888888888888877


Q ss_pred             Hh
Q 043204          395 KQ  396 (504)
Q Consensus       395 ~~  396 (504)
                      +.
T Consensus       369 e~  370 (504)
T KOG0624|consen  369 EL  370 (504)
T ss_pred             hc
Confidence            53

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.03  E-value=3.6e-06  Score=87.30  Aligned_cols=344  Identities=14%  Similarity=0.023  Sum_probs=205.4

Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCC-----cch--HHHHHHHHHHH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEV-----KSR--IQSLNLLMDVL  161 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~--~~~~~~l~~~~  161 (504)
                      .....|++..+...++.+.......+..........+...|+++++...+.........     .+.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            34456777777777766532111111222233444556778999998888776432111     111  12222334456


Q ss_pred             hhcCCHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHH
Q 043204          162 CQCRRSDLALHVFQEMDFQGCYPDR----ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIYRTLLFALC  236 (504)
Q Consensus       162 ~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  236 (504)
                      ...|+++.|...+++....-...+.    ...+.+...+...|++++|...+++........+... ...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6789999999999987653111121    2345555667789999999999988854434333221 1235556677788


Q ss_pred             hcCchhHHHHHHHHHHHc----CCC--CCcchhhhhhccccCCCCChHHHHHHHHHHHHcCC--CC--ChhhHHHHHHHH
Q 043204          237 DQGKIQDAMQILEKILRK----GLK--APKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGG--IP--SLASYSAMAIDL  306 (504)
Q Consensus       237 ~~g~~~~a~~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~--~~~~~~~ll~~~  306 (504)
                      ..|+++.|...+++....    +..  +........+...+...|+++.|...+.+......  .+  ....+..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998887653    111  11111222334455667999999998888764311  11  123333344556


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCc-chhhH-----HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccH---HHHHHHHHHH
Q 043204          307 YNEGRIVEGDKVLDEMRTKGFWP-SLVMY-----EAKLAALFKDGMVDEALEVIEEEMVKGTFVPTV---RVYNILLKGL  377 (504)
Q Consensus       307 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~  377 (504)
                      ...|+.+.|...+.......... ....+     ...+..+...|+.+.|...+.. ..........   ..+..+..++
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~-~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQ-APKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHh-cCCCCCccchhHHHHHHHHHHHH
Confidence            66799999999888875421110 11111     1122344567889999888776 3322111111   1134566678


Q ss_pred             HhcCChHHHHHHHHHHHHhc---CCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC
Q 043204          378 CDAGNSAVAVMYLKKMSKQV---GCVAN-GETYGILVDGLCRDGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       378 ~~~~~~~~a~~~~~~~~~~~---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  433 (504)
                      ...|++++|...+++.....   +..++ ..+...+..++.+.|+.++|...+.+..+..
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            88899999999998876531   22222 2356667788889999999999999988753

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.02  E-value=1.6e-06  Score=89.80  Aligned_cols=344  Identities=14%  Similarity=0.002  Sum_probs=214.0

Q ss_pred             HHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCC------Cc--cHHHHHHHHHH
Q 043204           53 GILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNC------VN--WTQSFNTLLKE  124 (504)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~--~~~~~~~ll~~  124 (504)
                      ......|++..+..+++.+.......++.........+...|++++|...+....+.-.      .+  .......+...
T Consensus       382 ~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~  461 (903)
T PRK04841        382 WSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQV  461 (903)
T ss_pred             HHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHH
Confidence            34455677777777777663221122223334445556678999999999887654211      11  11222233345


Q ss_pred             HHhcchHHHHHHHHHHhhcCCCCcc---hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC----CC-CCCHhhHHHHHHHH
Q 043204          125 MVKESKLEAAHILFLRSCYGWEVKS---RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ----GC-YPDRESYHILMKGL  196 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~~~~~l~~~~  196 (504)
                      +...|+++.|...+++.........   .....+.+...+...|++++|...+++....    |. .+...++..+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            5678999999999988764211111   1234566667778899999999999887642    11 11123455566778


Q ss_pred             HhcCCHHHHHHHHHHHHHHHhhCCCCc---CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCC--CCC-cchhhhhhccc
Q 043204          197 CNDRRLNEATHLLYSMFWRISQKGSGE---DIVIYRTLLFALCDQGKIQDAMQILEKILRKGL--KAP-KSRRHRIDLCP  270 (504)
Q Consensus       197 ~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~-~~~~~~~~~~~  270 (504)
                      ...|+++.|...+++........+...   ....+..+...+...|++++|...+.+......  .+. .......+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            889999999999998865544444321   233455566677788999999999988765321  111 12223334556


Q ss_pred             cCCCCChHHHHHHHHHHHHcCCCCC-hhhHH-----HHHHHHHhcCChhHHHHHHHHHHHCCCCcc---hhhHHHHHHHH
Q 043204          271 CNDGEDIEGAKSLINEALIRGGIPS-LASYS-----AMAIDLYNEGRIVEGDKVLDEMRTKGFWPS---LVMYEAKLAAL  341 (504)
Q Consensus       271 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  341 (504)
                      ....|+.+.|...+........... ...+.     ..+..+...|+.+.|...+...........   ...+..+..++
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            7788999999999988864311111 11111     112334456899999888776554221111   11134566778


Q ss_pred             hcCCCHHHHHHHHHHHHhc---CCCCcc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHh
Q 043204          342 FKDGMVDEALEVIEEEMVK---GTFVPT-VRVYNILLKGLCDAGNSAVAVMYLKKMSKQ  396 (504)
Q Consensus       342 ~~~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  396 (504)
                      ...|+.++|...+++++..   .|..++ ..+...+..++...|+.++|...+.+..+.
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8899999999999885542   222222 235566677888999999999999998875

>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=3e-08  Score=85.55  Aligned_cols=127  Identities=18%  Similarity=0.125  Sum_probs=54.0

Q ss_pred             hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh----cCChHHHHHHHHHHHHhcCCCCchhhHH
Q 043204          332 VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD----AGNSAVAVMYLKKMSKQVGCVANGETYG  407 (504)
Q Consensus       332 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~  407 (504)
                      ......+..|.+.++++.|.+.++. |.+.  ..|. +...+..++..    ...+.+|..+|+++.+  ...+++.+.+
T Consensus       132 E~~al~Vqi~L~~~R~dlA~k~l~~-~~~~--~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~ln  205 (290)
T PF04733_consen  132 ELLALAVQILLKMNRPDLAEKELKN-MQQI--DEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLN  205 (290)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHH-HHCC--SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHH
T ss_pred             cHHHHHHHHHHHcCCHHHHHHHHHH-HHhc--CCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHH
Confidence            3334444455555555555555554 4432  1222 22222222221    1235555555555443  2334444555


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCH-HHHHHHHHHHH
Q 043204          408 ILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQ-YEAVMWLEEMI  465 (504)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  465 (504)
                      .+..++...|++++|.+++.+....+ +-++.+...++.+....|+. +.+.+++.++.
T Consensus       206 g~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  206 GLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            55555555555555555555544432 22333444444444444544 34444555554

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=2.9e-06  Score=75.77  Aligned_cols=106  Identities=12%  Similarity=0.095  Sum_probs=86.8

Q ss_pred             HHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchH
Q 043204           52 IGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKL  131 (504)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  131 (504)
                      .++....|+++.|+..|...+... ++|-..|+.-..+|...|++++|++=-.+-.+.+ +.|...|+....++.-.|++
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhcccH
Confidence            356678899999999999999888 6788889999999999999999988777777665 56788999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHH
Q 043204          132 EAAHILFLRSCYGWEVKSRIQSLNLLMDVL  161 (504)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  161 (504)
                      ++|+.-|.+-.+..  +.+...++-+..++
T Consensus        87 ~eA~~ay~~GL~~d--~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD--PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHhhcC--CchHHHHHhHHHhh
Confidence            99999998877542  33455556666655

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.96  E-value=8.8e-06  Score=78.14  Aligned_cols=466  Identities=11%  Similarity=0.031  Sum_probs=227.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      .-.|.+.++...|..-|+...+..|.   |...|..++.+|.+.|++..|.++|.+..... |.+...-.-....-+..|
T Consensus       569 G~yyLea~n~h~aV~~fQsALR~dPk---D~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~G  644 (1238)
T KOG1127|consen  569 GPYYLEAHNLHGAVCEFQSALRTDPK---DYNLWLGLGEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNG  644 (1238)
T ss_pred             cccccCccchhhHHHHHHHHhcCCch---hHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhh
Confidence            34456677778888888888887776   77888888888888888888888887777654 222222222222334567


Q ss_pred             ChhHHHHHHHHhhhC------CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC------CCcchHHHHHHHHHHHh
Q 043204           95 QLNEAVSLFKNLSQF------NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW------EVKSRIQSLNLLMDVLC  162 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~  162 (504)
                      .+++|+..+..+...      +...-..++-.+...+...|-..+|...+++..+..      ....+...|-.+-.+|.
T Consensus       645 kYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~  724 (1238)
T KOG1127|consen  645 KYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACY  724 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHH
Confidence            788887777765431      111112233333333333333333333333321100      00111111211111110


Q ss_pred             hcCCHH------HHHHHHH-HhhhCCC--------------------CCCHhhHHHHHHHHHh--------cCCHHHHHH
Q 043204          163 QCRRSD------LALHVFQ-EMDFQGC--------------------YPDRESYHILMKGLCN--------DRRLNEATH  207 (504)
Q Consensus       163 ~~~~~~------~a~~~~~-~~~~~~~--------------------~p~~~~~~~l~~~~~~--------~~~~~~a~~  207 (504)
                      -.-..+      ....+|. +....+.                    ..+..+|..+...|.+        ..+...|..
T Consensus       725 ~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~  804 (1238)
T KOG1127|consen  725 IFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIR  804 (1238)
T ss_pred             HHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHH
Confidence            000000      0000111 0111111                    1122333333333322        112235666


Q ss_pred             HHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHH
Q 043204          208 LLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEA  287 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  287 (504)
                      .+.+..    +.. ..+..+|+.|.-. ...|.+.-+.-.|-+-...  .|.....+..+..++....+++.|...|...
T Consensus       805 c~KkaV----~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~s--ep~~~~~W~NlgvL~l~n~d~E~A~~af~~~  876 (1238)
T KOG1127|consen  805 CCKKAV----SLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFS--EPTCHCQWLNLGVLVLENQDFEHAEPAFSSV  876 (1238)
T ss_pred             HHHHHH----HHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhc--cccchhheeccceeEEecccHHHhhHHHHhh
Confidence            666552    221 2255667766554 5567777777666665543  5677777777888999999999999999998


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH----CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHH-------
Q 043204          288 LIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT----KGFWPSLVMYEAKLAALFKDGMVDEALEVIEE-------  356 (504)
Q Consensus       288 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-------  356 (504)
                      +...+. +...|-......-..|+.-+...+|..--.    .|--++..-|-.........|+.++-+...++       
T Consensus       877 qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~a  955 (1238)
T KOG1127|consen  877 QSLDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLA  955 (1238)
T ss_pred             hhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHH
Confidence            876443 444554443333344877788888776222    23333444443333444455555443332222       


Q ss_pred             ---HHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHH----HHHHHhhcCcHHHHHHHHHHH
Q 043204          357 ---EMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGI----LVDGLCRDGRFLEASRVLEEM  429 (504)
Q Consensus       357 ---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~----l~~~~~~~g~~~~A~~~~~~~  429 (504)
                         ...  +.+.+...|.......-+.+.+..|.+...+...-...+-+...|+.    +.+.++..|.++.|..-+...
T Consensus       956 l~~yf~--~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~ 1033 (1238)
T KOG1127|consen  956 LSYYFL--GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKE 1033 (1238)
T ss_pred             HHHHHh--cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhccc
Confidence               111  22344556666655556666666666666654422122334444443    233344455555444333221


Q ss_pred             HhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCH-HHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          430 LIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ-AKLPDI-SVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       430 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                      ...   .+...-..-+. ..-.|+++++.+.|+++..- +-..+. +....++-+....++ .+.|...+-+.
T Consensus      1034 ~~e---vdEdi~gt~l~-lFfkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~-k~~A~~lLfe~ 1101 (1238)
T KOG1127|consen 1034 WME---VDEDIRGTDLT-LFFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQ-KNDAQFLLFEV 1101 (1238)
T ss_pred             chh---HHHHHhhhhHH-HHHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhccc-chHHHHHHHHH
Confidence            110   11111111111 13346777777777777631 111222 233333333344444 55555554443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.94  E-value=2.8e-06  Score=78.75  Aligned_cols=109  Identities=17%  Similarity=0.146  Sum_probs=67.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCC
Q 043204          303 AIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGN  382 (504)
Q Consensus       303 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (504)
                      +.+......+.+|+.+++.++++..  -..-|..+.+.|...|+++.|.++|-+ -       +  .++-.|..|.+.|+
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e-~-------~--~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTE-A-------D--LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHh-c-------c--hhHHHHHHHhcccc
Confidence            4445555778888888887776542  334566777788888888888887764 1       1  34455677888888


Q ss_pred             hHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHH
Q 043204          383 SAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVL  426 (504)
Q Consensus       383 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  426 (504)
                      ++.|.++-.+..   |-......|-+-..-.-+.|++.+|.+++
T Consensus       807 w~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  807 WEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            888877776654   32333344444333344455555555444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.93  E-value=2.7e-05  Score=75.01  Aligned_cols=318  Identities=13%  Similarity=0.120  Sum_probs=177.3

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYA   91 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (504)
                      +....++...+-+.+-+++++++.-....+.-+...-|.|+-...+. +..+..+..+++...+ -|+      +...+.
T Consensus       988 S~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~------ia~iai 1059 (1666)
T KOG0985|consen  988 SVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APD------IAEIAI 1059 (1666)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chh------HHHHHh
Confidence            44455666666666666666666544322333333344444333333 3445555555555443 222      233344


Q ss_pred             hcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHH
Q 043204           92 RAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLAL  171 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  171 (504)
                      ..+-+++|..+|...-     .+..+.+.|+.   .-+.++.|.+.-++..       ....|..+..+-.+.|.+.+|.
T Consensus      1060 ~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n-------~p~vWsqlakAQL~~~~v~dAi 1124 (1666)
T KOG0985|consen 1060 ENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN-------EPAVWSQLAKAQLQGGLVKDAI 1124 (1666)
T ss_pred             hhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC-------ChHHHHHHHHHHHhcCchHHHH
Confidence            5555666666665432     12222233332   2355666666555543       2346788888888888888887


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 043204          172 HVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKI  251 (504)
Q Consensus       172 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  251 (504)
                      +-|-+..      |+..|..++....+.|.|++-..++...    ++...+|.+.  ..|+-+|++.++..+..+++.  
T Consensus      1125 eSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~Ma----Rkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-- 1190 (1666)
T KOG0985|consen 1125 ESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMA----RKKVREPYID--SELIFAYAKTNRLTELEEFIA-- 1190 (1666)
T ss_pred             HHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHH----HHhhcCccch--HHHHHHHHHhchHHHHHHHhc--
Confidence            7665433      6677888888888888888888877766    4444444433  467778888888776655542  


Q ss_pred             HHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcch
Q 043204          252 LRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSL  331 (504)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  331 (504)
                            .++......+..-|...+.++.|.-++.         +..-|..+...+...|+++.|...-++.-      +.
T Consensus      1191 ------gpN~A~i~~vGdrcf~~~~y~aAkl~y~---------~vSN~a~La~TLV~LgeyQ~AVD~aRKAn------s~ 1249 (1666)
T KOG0985|consen 1191 ------GPNVANIQQVGDRCFEEKMYEAAKLLYS---------NVSNFAKLASTLVYLGEYQGAVDAARKAN------ST 1249 (1666)
T ss_pred             ------CCCchhHHHHhHHHhhhhhhHHHHHHHH---------HhhhHHHHHHHHHHHHHHHHHHHHhhhcc------ch
Confidence                  1233333334555666666776666553         33456666667777777777665544332      44


Q ss_pred             hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043204          332 VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKM  393 (504)
Q Consensus       332 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  393 (504)
                      .||..+-.+|...+.+.-|.      |...++-....-...++..|-..|-+++.+.+++..
T Consensus      1250 ktWK~VcfaCvd~~EFrlAQ------iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~ 1305 (1666)
T KOG0985|consen 1250 KTWKEVCFACVDKEEFRLAQ------ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAG 1305 (1666)
T ss_pred             hHHHHHHHHHhchhhhhHHH------hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhh
Confidence            56666656665555444331      222222333334455555566666666655555543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=1.5e-07  Score=80.31  Aligned_cols=181  Identities=10%  Similarity=-0.039  Sum_probs=108.7

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHH---HHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDS---VFATAI   87 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~   87 (504)
                      +-.+...+...|++++|...|+++...+|+-.....++..+..++.+.|++++|...++.+.+.. +.+..   ++..+.
T Consensus        36 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~g  114 (235)
T TIGR03302        36 LYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYAYYLRG  114 (235)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHHHHHHH
Confidence            34455666677777777777777777665421122456666777777777777777777777654 22222   344444


Q ss_pred             HHHHhc--------CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHH
Q 043204           88 RTYARA--------GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMD  159 (504)
Q Consensus        88 ~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  159 (504)
                      .++...        |+++.|.+.|+.+.+..+.. ...+..+...    +.....      .         ......+..
T Consensus       115 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~-~~~~~a~~~~----~~~~~~------~---------~~~~~~~a~  174 (235)
T TIGR03302       115 LSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNS-EYAPDAKKRM----DYLRNR------L---------AGKELYVAR  174 (235)
T ss_pred             HHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCC-hhHHHHHHHH----HHHHHH------H---------HHHHHHHHH
Confidence            444433        56677777777766543221 1111111100    000000      0         001124566


Q ss_pred             HHhhcCCHHHHHHHHHHhhhCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          160 VLCQCRRSDLALHVFQEMDFQGC--YPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       160 ~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      .|.+.|++++|...++...+...  +.....+..+..++.+.|++++|..+++.+
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            78889999999999998887621  123467888889999999999999988877

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).

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.89  E-value=3e-06  Score=79.49  Aligned_cols=231  Identities=17%  Similarity=0.127  Sum_probs=149.3

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcC-C-------CCccHHHHHHHHH
Q 043204           17 IIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGD-S-------CECKDSVFATAIR   88 (504)
Q Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------~~~~~~~~~~l~~   88 (504)
                      .|..-|+.+.|.+..+.+.        +...|..+.+.|.+.++.+-|.-.+..|... |       ...+...-.-..-
T Consensus       737 fyvtiG~MD~AfksI~~Ik--------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAv  808 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK--------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAV  808 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh--------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHH
Confidence            3556788899988877765        4467999999999999998887777766531 1       1111122223333


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                      .....|.+++|+.+|.+-+..+         .|=+.|...|.+++|.++-+.-.   .++. -.||..-...+-..+|.+
T Consensus       809 LAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~D---RiHL-r~Tyy~yA~~Lear~Di~  875 (1416)
T KOG3617|consen  809 LAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKD---RIHL-RNTYYNYAKYLEARRDIE  875 (1416)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhcc---ceeh-hhhHHHHHHHHHhhccHH
Confidence            4467789999999998877643         33456677899999988775432   1221 235555666666778888


Q ss_pred             HHHHHHHHhhh----------CC---------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          169 LALHVFQEMDF----------QG---------CYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       169 ~a~~~~~~~~~----------~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      .|++.|++...          ..         -..|...|.......-..|+.+.|+.+|...             .-|.
T Consensus       876 ~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A-------------~D~f  942 (1416)
T KOG3617|consen  876 AALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSA-------------KDYF  942 (1416)
T ss_pred             HHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHh-------------hhhh
Confidence            88888765321          11         0123333444444445678888888887755             2355


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHH
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEAL  288 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  288 (504)
                      ++++..|-.|+.++|..+-++-       .+......+...|...|++.+|..+|.+..
T Consensus       943 s~VrI~C~qGk~~kAa~iA~es-------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEES-------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHhc-------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            6777777778888887776642       333344455777888888888888887664

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

Probab=98.88  E-value=2.1e-06  Score=85.03  Aligned_cols=134  Identities=10%  Similarity=0.079  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGL  377 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (504)
                      .|..|...|.+.+..++|.++++.|.+. +......|...+..+.+.++-+.|..++.+++....-+-......-.+..-
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            3444444444445555555555555443 112344444444555555554555555554444332111222233333333


Q ss_pred             HhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCc
Q 043204          378 CDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSY  434 (504)
Q Consensus       378 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  434 (504)
                      .+.|+.+++..+|+.....  .+.....|+.+++.-.++|+.+.+..+|++....++
T Consensus      1611 Fk~GDaeRGRtlfEgll~a--yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSA--YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhh--CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            4445555555555544432  122233445555555555555555555555544443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.88  E-value=0.0001  Score=71.34  Aligned_cols=382  Identities=11%  Similarity=0.114  Sum_probs=210.7

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCC--CCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDS--CECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL  121 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (504)
                      |+..-+....++...+-+.+.+++++++.-..  +..+...-|.|+-..++ -+.....+..+++-..+ .|      .+
T Consensus       983 dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyD-a~------~i 1054 (1666)
T KOG0985|consen  983 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYD-AP------DI 1054 (1666)
T ss_pred             ChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCC-ch------hH
Confidence            44445555666666666677777777665332  11122223333333333 34555555555554443 12      23


Q ss_pred             HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043204          122 LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR  201 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  201 (504)
                      .......+-+++|..+|++...      +....+.|+.   .-+..+.|.+.-++..      .+..|+.+..+-.+.|.
T Consensus      1055 a~iai~~~LyEEAF~ifkkf~~------n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~ 1119 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKFDM------NVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGL 1119 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHhcc------cHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCc
Confidence            4455566677777777776531      2333344443   2366677766665554      34568888888888888


Q ss_pred             HHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHH
Q 043204          202 LNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAK  281 (504)
Q Consensus       202 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  281 (504)
                      +.+|.+-|-+.          .|...|..+++...+.|.+++-.+++.-..+....|.   .-+-++-++++.++..+.+
T Consensus      1120 v~dAieSyika----------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~---id~eLi~AyAkt~rl~elE 1186 (1666)
T KOG0985|consen 1120 VKDAIESYIKA----------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY---IDSELIFAYAKTNRLTELE 1186 (1666)
T ss_pred             hHHHHHHHHhc----------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc---chHHHHHHHHHhchHHHHH
Confidence            88887776543          1566788888888888888888887776666543332   2222333445555444443


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC
Q 043204          282 SLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG  361 (504)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  361 (504)
                      +++       ..|+......+.+-|...+.++.|.-+|.         +..-|..|...+...|+++.|...-++     
T Consensus      1187 ~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~---------~vSN~a~La~TLV~LgeyQ~AVD~aRK----- 1245 (1666)
T KOG0985|consen 1187 EFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYS---------NVSNFAKLASTLVYLGEYQGAVDAARK----- 1245 (1666)
T ss_pred             HHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHH---------HhhhHHHHHHHHHHHHHHHHHHHHhhh-----
Confidence            332       23566666666666666666666666654         333456666666777777776655443     


Q ss_pred             CCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchH
Q 043204          362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETY  441 (504)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  441 (504)
                        -.+..||..+-.+|...+.+..|     +|... ++.....-..-++.-|-..|-+++-..+++...... +.....|
T Consensus      1246 --Ans~ktWK~VcfaCvd~~EFrlA-----QiCGL-~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmf 1316 (1666)
T KOG0985|consen 1246 --ANSTKTWKEVCFACVDKEEFRLA-----QICGL-NIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMF 1316 (1666)
T ss_pred             --ccchhHHHHHHHHHhchhhhhHH-----HhcCc-eEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHH
Confidence              23555777766666666554433     22211 222333445667777777777777777776554321 2233445


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 043204          442 NVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQ  499 (504)
Q Consensus       442 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~  499 (504)
                      +-|.-.|++- ++++..+-++-...      ....-.++++ |.+..-|.+..=++.+
T Consensus      1317 TELaiLYsky-kp~km~EHl~LFws------RvNipKviRA-~eqahlW~ElvfLY~~ 1366 (1666)
T KOG0985|consen 1317 TELAILYSKY-KPEKMMEHLKLFWS------RVNIPKVIRA-AEQAHLWSELVFLYDK 1366 (1666)
T ss_pred             HHHHHHHHhc-CHHHHHHHHHHHHH------hcchHHHHHH-HHHHHHHHHHHHHHHh
Confidence            5555555443 34554444444432      1223345666 3333336665555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.87  E-value=2e-05  Score=75.76  Aligned_cols=421  Identities=13%  Similarity=0.008  Sum_probs=226.6

Q ss_pred             CChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHH
Q 043204           22 KSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVS  101 (504)
Q Consensus        22 ~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (504)
                      ++...|+..|=+..+.+|.   -...|..|...|....+...|.+.|+...+.+ ..+..........|++..+++.|..
T Consensus       472 K~~~~al~ali~alrld~~---~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~  547 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVS---LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFE  547 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccc---hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHH
Confidence            3467788888777777655   34578888888887778888888888888776 6666778888888888888888887


Q ss_pred             HHHHhhhCCCC-ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          102 LFKNLSQFNCV-NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       102 ~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      +.-..-+.... .-...|....-.|...++...|..-|+.....  .+.|...|..+..+|.++|.+..|.++|.+....
T Consensus       548 I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~--dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  548 ICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRT--DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcC--CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            74333222110 11122333444566778888888888877643  2446777888888888888888888888877664


Q ss_pred             CCCCCHhhHHHHH--HHHHhcCCHHHHHHHHHHHHHHHhh--CCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH------
Q 043204          181 GCYPDRESYHILM--KGLCNDRRLNEATHLLYSMFWRISQ--KGSGEDIVIYRTLLFALCDQGKIQDAMQILEK------  250 (504)
Q Consensus       181 ~~~p~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~------  250 (504)
                        .|+ .+|....  -.-+..|.+.+++..+..+......  .+..--..++..+...+.-.|-..++.+++++      
T Consensus       626 --rP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~  702 (1238)
T KOG1127|consen  626 --RPL-SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFI  702 (1238)
T ss_pred             --CcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence              333 2232222  2235677788887777766422111  11111122333333333323322333333322      


Q ss_pred             -HHHcCCCCCcchhhhhhcccc-----------------------CCCCCh---H---HHHHHHHHHHHcCCCCChhhHH
Q 043204          251 -ILRKGLKAPKSRRHRIDLCPC-----------------------NDGEDI---E---GAKSLINEALIRGGIPSLASYS  300 (504)
Q Consensus       251 -~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~  300 (504)
                       ...... .++.....++...|                       ...+..   +   .+.+.+-.-++.  ..+..+|.
T Consensus       703 ~~l~h~~-~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl--~~~~~~Wy  779 (1238)
T KOG1127|consen  703 VSLIHSL-QSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSL--AIHMYPWY  779 (1238)
T ss_pred             HHHHHhh-hhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHH--hhccchHH
Confidence             222211 01111111111111                       000100   1   111111111111  11234444


Q ss_pred             HHHHHHHhc--------CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHH
Q 043204          301 AMAIDLYNE--------GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNI  372 (504)
Q Consensus       301 ~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  372 (504)
                      .+...|.+.        .+...|+..+.+..+..-. +..+|+.|.-. ...|++.-+...|-+.....  +....+|..
T Consensus       780 NLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfIks~~se--p~~~~~W~N  855 (1238)
T KOG1127|consen  780 NLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFIKSRFSE--PTCHCQWLN  855 (1238)
T ss_pred             HHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhhhhhhcc--ccchhheec
Confidence            444444441        2223566666666554222 55566655544 66677777766665422222  345567777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHh----cCcCCCcchHHHHHHH
Q 043204          373 LLKGLCDAGNSAVAVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLI----RSYWPCVETYNVLIRG  447 (504)
Q Consensus       373 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~l~~~  447 (504)
                      +.-.+....+++.|...|...+.   +.| |...|-.........|+.-++..+|..--+    .|-.|...-|-.....
T Consensus       856 lgvL~l~n~d~E~A~~af~~~qS---LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~  932 (1238)
T KOG1127|consen  856 LGVLVLENQDFEHAEPAFSSVQS---LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEI  932 (1238)
T ss_pred             cceeEEecccHHHhhHHHHhhhh---cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHH
Confidence            77777888888888888888764   344 344555444445566777777777765222    2333444444444444


Q ss_pred             HHccCCHHHHHHHH
Q 043204          448 LCSIGKQYEAVMWL  461 (504)
Q Consensus       448 ~~~~g~~~~a~~~~  461 (504)
                      ....|+.++-+...
T Consensus       933 h~~Ng~~e~~I~t~  946 (1238)
T KOG1127|consen  933 HLQNGNIEESINTA  946 (1238)
T ss_pred             HHhccchHHHHHHh
Confidence            55556655544333

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

Probab=98.86  E-value=2.4e-06  Score=79.12  Aligned_cols=211  Identities=13%  Similarity=0.098  Sum_probs=133.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhcccc
Q 043204          192 LMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPC  271 (504)
Q Consensus       192 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  271 (504)
                      +...+...|-...|..++++.             ..|..++.+|...|+..+|..+..+..++                 
T Consensus       404 laell~slGitksAl~I~Erl-------------emw~~vi~CY~~lg~~~kaeei~~q~lek-----------------  453 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERL-------------EMWDPVILCYLLLGQHGKAEEINRQELEK-----------------  453 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhH-------------HHHHHHHHHHHHhcccchHHHHHHHHhcC-----------------
Confidence            344445555556666665544             34555566666666666666665555442                 


Q ss_pred             CCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHH
Q 043204          272 NDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEAL  351 (504)
Q Consensus       272 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  351 (504)
                                           .|+...|..+.+..-...-+++|.++.+..-.+       .-..+.......++++++.
T Consensus       454 ---------------------~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~  505 (777)
T KOG1128|consen  454 ---------------------DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEAD  505 (777)
T ss_pred             ---------------------CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHH
Confidence                                 245555555555444444455566555543322       1112222233467788888


Q ss_pred             HHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHH
Q 043204          352 EVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEML  430 (504)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  430 (504)
                      +.|+..+.....  ...+|-.+..+..+.++.+.|.+.|.....   ..| +...||.+-.+|.+.|+..+|...+.+..
T Consensus       506 ~hle~sl~~npl--q~~~wf~~G~~ALqlek~q~av~aF~rcvt---L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAl  580 (777)
T KOG1128|consen  506 KHLERSLEINPL--QLGTWFGLGCAALQLEKEQAAVKAFHRCVT---LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEAL  580 (777)
T ss_pred             HHHHHHhhcCcc--chhHHHhccHHHHHHhhhHHHHHHHHHHhh---cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHh
Confidence            888876666543  334676666677778888888888888774   344 45678888888888888888888888888


Q ss_pred             hcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          431 IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       431 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +.+ .-+...|...+....+.|.++.|++.+.++.+
T Consensus       581 Kcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  581 KCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            776 45566677777777788888888888887774

>PLN02789 farnesyltranstransferase

Probab=98.84  E-value=4.1e-06  Score=73.48  Aligned_cols=213  Identities=11%  Similarity=0.086  Sum_probs=156.1

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC-ChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN-RITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      ..+-.++...+..++|+.+.+.+.+.+|+   +..+|+....++...| ++++++..++.+.+.. +.+..+|+.....+
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~lnP~---~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l  116 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLNPG---NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCch---hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHH
Confidence            34556666788999999999999999887   7778887777777777 6799999999999887 66777788777667


Q ss_pred             HhcCCh--hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc---C
Q 043204           91 ARAGQL--NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC---R  165 (504)
Q Consensus        91 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~  165 (504)
                      .+.|+.  ++++..++.+.+.+. -+..+|+.....+...|++++++..++++.+...  .+..+|+.....+.+.   |
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~--~N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV--RNNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC--CchhHHHHHHHHHHhccccc
Confidence            677753  678889988888774 4477888888888899999999999999986532  2455666665555443   2


Q ss_pred             C----HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc----CCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh
Q 043204          166 R----SDLALHVFQEMDFQGCYPDRESYHILMKGLCND----RRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD  237 (504)
Q Consensus       166 ~----~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  237 (504)
                      .    .+..+++..++..... -|...|+.+...+...    +...+|.+.+.+.    .+.+ ..+......|++.|+.
T Consensus       194 ~~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~----~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEV----LSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHh----hccc-CCcHHHHHHHHHHHHh
Confidence            2    2466777766666543 3677888888777663    3445677777766    4433 2356677778888875

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

Probab=98.81  E-value=5.4e-05  Score=63.99  Aligned_cols=330  Identities=11%  Similarity=0.015  Sum_probs=182.3

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHH-HHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQ-SFNTLLK  123 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~  123 (504)
                      +.-..-+...+...|++..|+.-|....+.+ +.+-.++..-...|...|+-..|+.-|....+.  +||-. .-..-..
T Consensus        38 vekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   38 VEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            3334455666666677777777776666553 222233444455666666666666666666554  34311 1111122


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      .+.+.|.++.|..=|+......   |+.   +....++.+.--.++-.                .....+..+...|+..
T Consensus       115 vllK~Gele~A~~DF~~vl~~~---~s~---~~~~eaqskl~~~~e~~----------------~l~~ql~s~~~~GD~~  172 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHE---PSN---GLVLEAQSKLALIQEHW----------------VLVQQLKSASGSGDCQ  172 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcC---CCc---chhHHHHHHHHhHHHHH----------------HHHHHHHHHhcCCchh
Confidence            4455566666666665555331   110   11111111111111111                1122333456678888


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL  283 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  283 (504)
                      .|+.....+    .+. .+.|...|..-..+|...|++..|+.-++..-+.  ..++.....-+..++-..|+.+.++..
T Consensus       173 ~ai~~i~~l----lEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL--s~DnTe~~ykis~L~Y~vgd~~~sL~~  245 (504)
T KOG0624|consen  173 NAIEMITHL----LEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKL--SQDNTEGHYKISQLLYTVGDAENSLKE  245 (504)
T ss_pred             hHHHHHHHH----Hhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc--cccchHHHHHHHHHHHhhhhHHHHHHH
Confidence            888887777    333 2347777888888888888888888777766554  223333333334445555555555555


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC
Q 043204          284 INEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF  363 (504)
Q Consensus       284 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  363 (504)
                      +++.++.+  |+-..+-..   |   ..+.+..+.++.|.                .....+++.++++..+..|+....
T Consensus       246 iRECLKld--pdHK~Cf~~---Y---KklkKv~K~les~e----------------~~ie~~~~t~cle~ge~vlk~ep~  301 (504)
T KOG0624|consen  246 IRECLKLD--PDHKLCFPF---Y---KKLKKVVKSLESAE----------------QAIEEKHWTECLEAGEKVLKNEPE  301 (504)
T ss_pred             HHHHHccC--cchhhHHHH---H---HHHHHHHHHHHHHH----------------HHHhhhhHHHHHHHHHHHHhcCCc
Confidence            55555432  221111100   0   11112222222222                234456777788888876665432


Q ss_pred             Cc--cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC
Q 043204          364 VP--TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       364 ~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  433 (504)
                      .+  ....+..+-.++...|++.+|++...++..   +.|+ ..++.--..+|.-...++.|..-|+...+.+
T Consensus       302 ~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~---~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  302 ETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD---IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             ccceeeeeeheeeecccccCCHHHHHHHHHHHHh---cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            11  122344555667778999999999998874   4555 6777777788888888999999999888864

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.78  E-value=0.00018  Score=68.20  Aligned_cols=167  Identities=10%  Similarity=0.096  Sum_probs=96.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ   95 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (504)
                      ......|-+++|+.+|++..+.           ..|=..|-..|.+++|.++-+.-.+..+   ..||.....-+-..+|
T Consensus       808 vLAieLgMlEeA~~lYr~ckR~-----------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~D  873 (1416)
T KOG3617|consen  808 VLAIELGMLEEALILYRQCKRY-----------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRD  873 (1416)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH-----------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhcc
Confidence            3344677788888888777653           2333455566778888777766554432   3345555555556667


Q ss_pred             hhHHHHHHHHh----------hhCCCC---------ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHH
Q 043204           96 LNEAVSLFKNL----------SQFNCV---------NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNL  156 (504)
Q Consensus        96 ~~~a~~~~~~~----------~~~~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  156 (504)
                      .+.|++.|+..          ...+++         .+...|.-...-+-..|+.+.|+.+|....          -|-+
T Consensus       874 i~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~----------D~fs  943 (1416)
T KOG3617|consen  874 IEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK----------DYFS  943 (1416)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh----------hhhh
Confidence            77777776632          221110         111222222223334688888888887654          2355


Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      +++..+-.|+.++|-++-++-.      |......|.+.|-..|++.+|..+|.+.
T Consensus       944 ~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  944 MVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             heeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            6666666677777766655432      4455556666676777777766666554

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

Probab=98.76  E-value=2.3e-06  Score=77.13  Aligned_cols=250  Identities=17%  Similarity=0.105  Sum_probs=184.3

Q ss_pred             HHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 043204          234 ALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIV  313 (504)
Q Consensus       234 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  313 (504)
                      -+.+.|++.+|.-.|+..++.  .|.....+..+.......++-..|+..+.+.++..+. +......|...|...|.-.
T Consensus       294 ~lm~nG~L~~A~LafEAAVkq--dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQ--DPQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhh--ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHH
Confidence            356788899999999988887  5677778888888888888889999999999887655 6777778888888889889


Q ss_pred             HHHHHHHHHHHCCCCc--------chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH
Q 043204          314 EGDKVLDEMRTKGFWP--------SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV  385 (504)
Q Consensus       314 ~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (504)
                      .|...++..+...++-        +...-..  ..+.....+....++|-++....+..+|..+...|.-.|.-.|++++
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            9999988886643210        0000000  12233334556677777767777756777778888878999999999


Q ss_pred             HHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccCCHHHHHHHHHH
Q 043204          386 AVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIGKQYEAVMWLEE  463 (504)
Q Consensus       386 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~  463 (504)
                      |.+.|+....   ++| |..+||-|...++...+.++|...|.+.++.  +|+ +.+..-|.-+|...|.+++|.+.|=.
T Consensus       449 aiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  449 AVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            9999999985   466 4578999999999999999999999999985  465 44555677789999999999998877


Q ss_pred             HHHcC---------CCCCHHHHHHHHHHHhcCCCchhHHH
Q 043204          464 MISQA---------KLPDISVWSSLVASVCCNTADLNVCR  494 (504)
Q Consensus       464 ~~~~~---------~~p~~~~~~~ll~~~~~~~~~~~~a~  494 (504)
                      .+...         -.++..+|.+|-.++...+. .|.+.
T Consensus       524 AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~-~D~l~  562 (579)
T KOG1125|consen  524 ALSMQRKSRNHNKAPMASENIWQTLRLALSAMNR-SDLLQ  562 (579)
T ss_pred             HHHhhhcccccccCCcchHHHHHHHHHHHHHcCC-chHHH
Confidence            66321         11234577777766554444 55343

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

Probab=98.75  E-value=7.9e-06  Score=75.86  Aligned_cols=232  Identities=13%  Similarity=0.086  Sum_probs=125.7

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHH
Q 043204          154 LNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLF  233 (504)
Q Consensus       154 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~  233 (504)
                      -..+...+...|-...|..+|+++..         |.-+|.+|...|+..+|..+..+-    .+  -+||...|..+.+
T Consensus       401 q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~----le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQE----LE--KDPDPRLYCLLGD  465 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHH----hc--CCCcchhHHHhhh
Confidence            34444555555555555555554432         334455555555555555554433    22  3445555555555


Q ss_pred             HHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 043204          234 ALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIV  313 (504)
Q Consensus       234 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  313 (504)
                      .....--+++|.++.++.-..        ....+.....+.++++++.+.|+...+.++. ...+|-...-+..+.++++
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhH
Confidence            544444455555555443221        0011111222345555555555555544332 4455655555666667777


Q ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043204          314 EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKM  393 (504)
Q Consensus       314 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  393 (504)
                      .+.+.|.......+. +...||.+-.+|.+.++..+|...+.++++..  .-+...|...+....+.|.+++|.+.+.++
T Consensus       537 ~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn--~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  537 AAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN--YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC--CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            777777777664322 55677777777777777777777777744443  334445666666667777777777777776


Q ss_pred             HHhcCCCCchhhHHHHHHH
Q 043204          394 SKQVGCVANGETYGILVDG  412 (504)
Q Consensus       394 ~~~~~~~p~~~~~~~l~~~  412 (504)
                      ........|..+...++..
T Consensus       614 l~~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  614 LDLRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             HHhhhhcccchhhHHHHHH
Confidence            6542222344444444433

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

Probab=98.73  E-value=1e-06  Score=71.49  Aligned_cols=177  Identities=14%  Similarity=0.053  Sum_probs=128.4

Q ss_pred             HHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           27 ALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        27 A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      +...+-......|+   |... ..+-..+...|+-+....+........ +.|.......+...++.|++..|+..|.+.
T Consensus        52 a~~al~~~~~~~p~---d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA  126 (257)
T COG5010          52 AAAALGAAVLRNPE---DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKA  126 (257)
T ss_pred             HHHHHHHHHhcCcc---hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            44444444444555   5555 556677777788888777777755443 455566677888888888888888888888


Q ss_pred             hhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH
Q 043204          107 SQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR  186 (504)
Q Consensus       107 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  186 (504)
                      .... ++|..+|+.+.-+|.+.|+++.|..-|.+..+-.+-.|  ...|.|.-.+.-.|+.+.|..++......+.. |.
T Consensus       127 ~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p--~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~  202 (257)
T COG5010         127 ARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEP--SIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DS  202 (257)
T ss_pred             hccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCc--hhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-ch
Confidence            7765 56778888888888888888888888888776544444  34577777788888888888888888776432 66


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          187 ESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       187 ~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ..-..+.......|+++.|..+...-
T Consensus       203 ~v~~NLAl~~~~~g~~~~A~~i~~~e  228 (257)
T COG5010         203 RVRQNLALVVGLQGDFREAEDIAVQE  228 (257)
T ss_pred             HHHHHHHHHHhhcCChHHHHhhcccc
Confidence            66777777788888888888887654

>PF12854 PPR_1: PPR repeat

Probab=98.73  E-value=1.9e-08  Score=54.79  Aligned_cols=32  Identities=41%  Similarity=0.822  Sum_probs=16.0

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          181 GCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       181 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      |+.||..||++||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555444

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

Probab=98.73  E-value=1e-05  Score=80.50  Aligned_cols=232  Identities=12%  Similarity=0.081  Sum_probs=153.5

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc---hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhh
Q 043204          112 VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS---RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRES  188 (504)
Q Consensus       112 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  188 (504)
                      +.+...|-..|......++.++|.++++++....++.-   -...|.++++.-..-|.-+...++|++..+.  .-....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            44456777778888888899999998888875433222   2345667777666678888899999998875  223456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhc
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDL  268 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  268 (504)
                      |..|...|.+.+.+++|.++++.|+++   .+  .....|...+..+.+..+-+.|..++.+.++.-  |...       
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KK---F~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~l--Pk~e------- 1598 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKK---FG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSL--PKQE------- 1598 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHH---hc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhc--chhh-------
Confidence            888899999999999999999999643   33  356788888999999999899999998887752  1100       


Q ss_pred             cccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHH
Q 043204          269 CPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVD  348 (504)
Q Consensus       269 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  348 (504)
                                                ........+..-++.|+.+.+..+|+......++ -...|+..+++-.+.|+.+
T Consensus      1599 --------------------------Hv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~ 1651 (1710)
T KOG1070|consen 1599 --------------------------HVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIK 1651 (1710)
T ss_pred             --------------------------hHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHH
Confidence                                      1222333333444556666666677666665333 4456666777777777777


Q ss_pred             HHHHHHHHHHhcCCCCccH--HHHHHHHHHHHhcCChHHHH
Q 043204          349 EALEVIEEEMVKGTFVPTV--RVYNILLKGLCDAGNSAVAV  387 (504)
Q Consensus       349 ~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~  387 (504)
                      .+..+|++ ....++.|--  ..|...+..--..|+-+.++
T Consensus      1652 ~vR~lfeR-vi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1652 YVRDLFER-VIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             HHHHHHHH-HHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            77777776 4444444432  34555555444455544433

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

Probab=98.73  E-value=4.2e-06  Score=68.00  Aligned_cols=168  Identities=15%  Similarity=0.091  Sum_probs=134.2

Q ss_pred             CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHH
Q 043204           77 ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNL  156 (504)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  156 (504)
                      |-|..+ ..+-..+...|+-+....+........ ..+....+.++....+.|++..|...|++....  -++|...|+.
T Consensus        64 p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l--~p~d~~~~~~  139 (257)
T COG5010          64 PEDLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL--APTDWEAWNL  139 (257)
T ss_pred             cchHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc--CCCChhhhhH
Confidence            345555 666677788888888888877755433 344566677899999999999999999999754  4678899999


Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALC  236 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  236 (504)
                      +.-+|.+.|+.+.|..-|.+..+.... +...++.+.-.+.-.|+.+.|..++...    ...+ .-|..+-..+.....
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a----~l~~-~ad~~v~~NLAl~~~  213 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPA----YLSP-AADSRVRQNLALVVG  213 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHH----HhCC-CCchHHHHHHHHHHh
Confidence            999999999999999999998886432 5567888888899999999999999887    4443 336777788889999


Q ss_pred             hcCchhHHHHHHHHHHHc
Q 043204          237 DQGKIQDAMQILEKILRK  254 (504)
Q Consensus       237 ~~g~~~~a~~~~~~~~~~  254 (504)
                      ..|+++.|.++...-...
T Consensus       214 ~~g~~~~A~~i~~~e~~~  231 (257)
T COG5010         214 LQGDFREAEDIAVQELLS  231 (257)
T ss_pred             hcCChHHHHhhccccccc
Confidence            999999999988776553

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

Probab=98.73  E-value=1.2e-05  Score=78.83  Aligned_cols=238  Identities=10%  Similarity=0.011  Sum_probs=152.5

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..|+..+...+++++|.++.+...+.. +.....|-.+...+.+.++...+..+                 .++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            56678889999989999999999998777664 33334455555567777775555544                 2222


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      ......++.....+...+..   ..-+...+..+..+|-+.|+.++|..+++++.+.. +-|+...|.+...|+.. +.+
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence            22233333223333333332   12234466778889999999999999999999887 44788889999988888 999


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL  283 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  283 (504)
                      +|.+++.+...                   .+...+++.++.+++.++......                  +.+.-..+
T Consensus       167 KA~~m~~KAV~-------------------~~i~~kq~~~~~e~W~k~~~~~~~------------------d~d~f~~i  209 (906)
T PRK14720        167 KAITYLKKAIY-------------------RFIKKKQYVGIEEIWSKLVHYNSD------------------DFDFFLRI  209 (906)
T ss_pred             HHHHHHHHHHH-------------------HHHhhhcchHHHHHHHHHHhcCcc------------------cchHHHHH
Confidence            99999887732                   156666788888888888776432                  23333333


Q ss_pred             HHHHHHc-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHh
Q 043204          284 INEALIR-GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALF  342 (504)
Q Consensus       284 ~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  342 (504)
                      .+.+... +...-..++-.+-..|-..++++++..+++.+.+.... |.....-++.+|.
T Consensus       210 ~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        210 ERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            3333322 21223344455555566667788888888888776443 5555556666554

>PF12854 PPR_1: PPR repeat

Probab=98.72  E-value=1.7e-08  Score=54.94  Aligned_cols=32  Identities=44%  Similarity=0.847  Sum_probs=16.5

Q ss_pred             CCCCchhhHHHHHHHHhhcCcHHHHHHHHHHH
Q 043204          398 GCVANGETYGILVDGLCRDGRFLEASRVLEEM  429 (504)
Q Consensus       398 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  429 (504)
                      |+.||..+|++||++|++.|++++|.++|++|
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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.71  E-value=4.1e-06  Score=71.40  Aligned_cols=188  Identities=7%  Similarity=-0.055  Sum_probs=124.5

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH---HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccH--HHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD---SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWT--QSF  118 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  118 (504)
                      ....+..+...+...|++++|...|+++.... +.+.   .++..+..++...|++++|...++.+.+.......  .++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            55667777888888999999999998887764 3222   45677788888889999999999988765532221  234


Q ss_pred             HHHHHHHHhc--------chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHH
Q 043204          119 NTLLKEMVKE--------SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYH  190 (504)
Q Consensus       119 ~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  190 (504)
                      ..+...+...        |+.+.|.+.|+.+....+..  ...+..+.....    ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~~~a~~~~~~----~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNS--EYAPDAKKRMDY----LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCC--hhHHHHHHHHHH----HHH------HHH--------HHHH
Confidence            4444555543        67778888888776542221  111211111100    000      000        0112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          191 ILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       191 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .+...+.+.|++++|...++.......  +.+.....+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYP--DTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCC--CCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456678999999999999999842211  12335778899999999999999999999998765

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).

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.66  E-value=0.00045  Score=66.20  Aligned_cols=453  Identities=15%  Similarity=0.093  Sum_probs=256.2

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      ....+++.+|+...++..+++|. .+-..++.++  .+.+.|+.++|..+++.....+ ..|..|...+-.+|...+..+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn-~~~a~vLkaL--sl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPN-ALYAKVLKAL--SLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCC-cHHHHHHHHH--HHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhh
Confidence            34567899999999999999774 2222233333  3578899999999999988777 458889999999999999999


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH----HHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC--------
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA----AHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR--------  165 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------  165 (504)
                      +|..+|+...+..  |+..-...+..+|++.+.+.+    |+++++..      +.+...+-++++.+...-        
T Consensus        95 ~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~------pk~~yyfWsV~Slilqs~~~~~~~~~  166 (932)
T KOG2053|consen   95 EAVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNF------PKRAYYFWSVISLILQSIFSENELLD  166 (932)
T ss_pred             HHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC------CcccchHHHHHHHHHHhccCCccccc
Confidence            9999999998765  446677788888998888765    55555533      223455556666555431        


Q ss_pred             --CHHHHHHHHHHhhhCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchh
Q 043204          166 --RSDLALHVFQEMDFQG-CYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ  242 (504)
Q Consensus       166 --~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  242 (504)
                        -..-|.+.++.+.+.+ -.-+..-...-...+...|++++|++++..=.   .+.-..-+...-+.-+..+...+++.
T Consensus       167 ~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~l---a~~l~~~~~~l~~~~~dllk~l~~w~  243 (932)
T KOG2053|consen  167 PILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITL---AEKLTSANLYLENKKLDLLKLLNRWQ  243 (932)
T ss_pred             chhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHH---HHhccccchHHHHHHHHHHHHhcChH
Confidence              1234666777776653 11111112222334567889999999984321   22223334455556677788889999


Q ss_pred             HHHHHHHHHHHcCCCCCc---chhhhhhccc--------cCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc--
Q 043204          243 DAMQILEKILRKGLKAPK---SRRHRIDLCP--------CNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE--  309 (504)
Q Consensus       243 ~a~~~~~~~~~~~~~~~~---~~~~~~~~~~--------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--  309 (504)
                      +..++-.++...+.....   ..+..++-..        ....+..+...+...+....+   ....|-+-+.+..+.  
T Consensus       244 ~l~~l~~~Ll~k~~Ddy~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~  320 (932)
T KOG2053|consen  244 ELFELSSRLLEKGNDDYKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKL  320 (932)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcc
Confidence            999988888887643100   0111111111        111222222222222222221   112233333333332  


Q ss_pred             -CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH-------HHHHHHHHHHhcC
Q 043204          310 -GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR-------VYNILLKGLCDAG  381 (504)
Q Consensus       310 -~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~  381 (504)
                       |+.+++...|-+  +-|   +...|..=+..|...=..+.-..++......   .++..       -+...+..-...|
T Consensus       321 ~gd~ee~~~~y~~--kfg---~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~---~~~~s~~~k~l~~h~c~l~~~rl~G  392 (932)
T KOG2053|consen  321 IGDSEEMLSYYFK--KFG---DKPCCAIDLNHYLGHLNIDQLKSLMSKLVLA---DDDSSGDEKVLQQHLCVLLLLRLLG  392 (932)
T ss_pred             cCChHHHHHHHHH--HhC---CCcHhHhhHHHhhccCCHHHHHHHHHHhhcc---CCcchhhHHHHHHHHHHHHHHHHhh
Confidence             666655443322  222   2233444445555555555656666642222   22221       1222222222334


Q ss_pred             C-----hHHHHHHHHHHHHhc--C------CCCchh---------hHHHHHHHHhhcCcHH---HHHHHHHHHHhcCcCC
Q 043204          382 N-----SAVAVMYLKKMSKQV--G------CVANGE---------TYGILVDGLCRDGRFL---EASRVLEEMLIRSYWP  436 (504)
Q Consensus       382 ~-----~~~a~~~~~~~~~~~--~------~~p~~~---------~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~~  436 (504)
                      .     .+....++.++...+  |      +-|+..         +.+.|++.|.+.++..   +|.-+++...... +.
T Consensus       393 ~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~h  471 (932)
T KOG2053|consen  393 LYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PH  471 (932)
T ss_pred             ccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-Cc
Confidence            2     233344443332221  2      223332         3467889999988866   3444444444432 23


Q ss_pred             CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 043204          437 CVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQ  499 (504)
Q Consensus       437 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~  499 (504)
                      |..+=-.+|+.|.-.|-+..|.++++.+--..+..|...+..+-.  ....+.+..+...+..
T Consensus       472 nf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~~~~--~~t~g~~~~~s~~~~~  532 (932)
T KOG2053|consen  472 NFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLIFRR--AETSGRSSFASNTFNE  532 (932)
T ss_pred             cHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHHHHH--HHhcccchhHHHHHHH
Confidence            334445578899999999999999998876666666655544333  2333336555555443

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

Probab=98.65  E-value=1.1e-06  Score=71.60  Aligned_cols=157  Identities=7%  Similarity=0.001  Sum_probs=120.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      +..|...|+++.+....+.....  .            ..+...++.+++...++...+.+ +.|...|..+...|...|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~--~------------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g   87 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP--L------------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRN   87 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc--c------------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCC
Confidence            46788899988876554333211  1            12223677788888888888887 788889999999999999


Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHHHHHH-Hhcch--HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHH
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEM-VKESK--LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLAL  171 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  171 (504)
                      +++.|...|+...+.+. .+...+..+..++ ...|+  .++|..++++.....+.  +..++..+...+.+.|++++|.
T Consensus        88 ~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~--~~~al~~LA~~~~~~g~~~~Ai  164 (198)
T PRK10370         88 DYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN--EVTALMLLASDAFMQADYAQAI  164 (198)
T ss_pred             CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHcCCHHHHH
Confidence            99999999999988773 3567777777764 67677  59999999999876433  5567788899999999999999


Q ss_pred             HHHHHhhhCCCCCCHhhHH
Q 043204          172 HVFQEMDFQGCYPDRESYH  190 (504)
Q Consensus       172 ~~~~~~~~~~~~p~~~~~~  190 (504)
                      ..|+++.+.. +|+..-+.
T Consensus       165 ~~~~~aL~l~-~~~~~r~~  182 (198)
T PRK10370        165 ELWQKVLDLN-SPRVNRTQ  182 (198)
T ss_pred             HHHHHHHhhC-CCCccHHH
Confidence            9999998864 34544443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.64  E-value=1.4e-06  Score=84.29  Aligned_cols=131  Identities=11%  Similarity=0.203  Sum_probs=80.2

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ...+-.|..+..+.|.+++|..+++...+..|+   +...+..++.++.+.+++++|...+++..... +.+......+.
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd---~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD---SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC---cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            334445556666666666666666666666655   55666666666666666666666666666655 44445556666


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      .++.+.|++++|..+|+++...+ +.+..++..+...+...|+.++|...|++...
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666666532 22345556666666666666666666666654

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

Probab=98.63  E-value=2.8e-05  Score=63.32  Aligned_cols=86  Identities=19%  Similarity=0.129  Sum_probs=46.4

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc----CCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC
Q 043204          306 LYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK----DGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG  381 (504)
Q Consensus       306 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (504)
                      +.+..+.+-|...+++|.+-.   +..|.+.|..++.+    .+.+..|.-+|++ +... ..|+..+.+....++...|
T Consensus       147 ~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE-~s~k-~~~T~~llnG~Av~~l~~~  221 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEE-LSEK-TPPTPLLLNGQAVCHLQLG  221 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHH-Hhcc-cCCChHHHccHHHHHHHhc
Confidence            444455666666666666532   44455544444432    3445566666665 4332 2455555565555556666


Q ss_pred             ChHHHHHHHHHHHHh
Q 043204          382 NSAVAVMYLKKMSKQ  396 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~  396 (504)
                      ++++|..+++....+
T Consensus       222 ~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  222 RYEEAESLLEEALDK  236 (299)
T ss_pred             CHHHHHHHHHHHHhc
Confidence            666666666665543

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

Probab=98.62  E-value=3e-05  Score=76.23  Aligned_cols=204  Identities=10%  Similarity=0.072  Sum_probs=120.7

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc--------
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK--------   79 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------   79 (504)
                      ...+..|+..+...+++++|.++.+...+..|+   ....|..+...+.+.++..++..+  .+...- +.+        
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~---~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~-~~~~~~~~ve~  104 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEHKK---SISALYISGILSLSRRPLNDSNLL--NLIDSF-SQNLKWAIVEH  104 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc---ceehHHHHHHHHHhhcchhhhhhh--hhhhhc-ccccchhHHHH
Confidence            345677899999999999999999999888775   555555555577777776666655  222211 111        


Q ss_pred             -----------HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCc
Q 043204           80 -----------DSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVK  148 (504)
Q Consensus        80 -----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  148 (504)
                                 ..++..+..+|-+.|+.++|..+++++.+.+ +-++.+.|.+...|... ++++|..++.+....    
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~----  178 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR----  178 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH----
Confidence                       1344455555555566666666666666555 33455555666666555 666666555544321    


Q ss_pred             chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          149 SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       149 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                                  +...+++..+.+++.++....  |+               +++.-.++.+.+.   ...+...-+.++
T Consensus       179 ------------~i~~kq~~~~~e~W~k~~~~~--~~---------------d~d~f~~i~~ki~---~~~~~~~~~~~~  226 (906)
T PRK14720        179 ------------FIKKKQYVGIEEIWSKLVHYN--SD---------------DFDFFLRIERKVL---GHREFTRLVGLL  226 (906)
T ss_pred             ------------HHhhhcchHHHHHHHHHHhcC--cc---------------cchHHHHHHHHHH---hhhccchhHHHH
Confidence                        444455555566555555542  11               1222222222221   111233335566


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcC
Q 043204          229 RTLLFALCDQGKIQDAMQILEKILRKG  255 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~~~~~~~~~~~  255 (504)
                      -.+-..|-...+++++..+++.+++..
T Consensus       227 ~~l~~~y~~~~~~~~~i~iLK~iL~~~  253 (906)
T PRK14720        227 EDLYEPYKALEDWDEVIYILKKILEHD  253 (906)
T ss_pred             HHHHHHHhhhhhhhHHHHHHHHHHhcC
Confidence            667777888888888888888888763

>PLN02789 farnesyltranstransferase

Probab=98.62  E-value=7.1e-05  Score=65.82  Aligned_cols=196  Identities=8%  Similarity=-0.038  Sum_probs=124.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC-ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG-QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      +..+-..+...++.++|+.+.+.+++.. +-+..+|+..-.++...| ++++++..++.+.+.+... ..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npkn-yqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKN-YQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcc-hHHhHHHHHHHH
Confidence            3334444555678889999999988876 555566777777777777 6789999999988876544 455665555555


Q ss_pred             hcchH--HHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc---CC
Q 043204          127 KESKL--EAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCND---RR  201 (504)
Q Consensus       127 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---~~  201 (504)
                      +.|+.  ++++.+++++....  +-+..+|+....++...|+++++++.++++.+.++. |...|+.....+.+.   |.
T Consensus       118 ~l~~~~~~~el~~~~kal~~d--pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD--AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            55553  56777777776542  336777887778888888899999999988887644 566666665555443   22


Q ss_pred             H----HHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc----CchhHHHHHHHHHHH
Q 043204          202 L----NEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ----GKIQDAMQILEKILR  253 (504)
Q Consensus       202 ~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~  253 (504)
                      .    ++..+...++    ....+ -|...|+-+...+...    +...+|.+.+.+..+
T Consensus       195 ~~~~~e~el~y~~~a----I~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        195 LEAMRDSELKYTIDA----ILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             ccccHHHHHHHHHHH----HHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            2    3455555444    33222 2455666665555542    223345555555443

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

Probab=98.62  E-value=1.7e-05  Score=64.80  Aligned_cols=162  Identities=10%  Similarity=0.074  Sum_probs=118.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC
Q 043204          302 MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG  381 (504)
Q Consensus       302 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (504)
                      -+..|...|+++.+....+.+...    .        ..+...++.+++...++..+...  +.+...|..+...|...|
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g   87 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRN   87 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCC
Confidence            345677889988875554322211    1        12223667788888888756655  567889999999999999


Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhhHHHHHHH-HhhcCc--HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHH
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGETYGILVDG-LCRDGR--FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAV  458 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  458 (504)
                      ++++|...|++..+.  .+.+...+..+..+ +...|+  .++|.+++++..+.+ +-+...+..+...+.+.|++++|+
T Consensus        88 ~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai  164 (198)
T PRK10370         88 DYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAI  164 (198)
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHH
Confidence            999999999999864  23356677777776 467777  599999999999975 346778888889999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH
Q 043204          459 MWLEEMISQAKLPDISVWSSLVAS  482 (504)
Q Consensus       459 ~~~~~~~~~~~~p~~~~~~~ll~~  482 (504)
                      ..|+++.+.. .|+..-. .++++
T Consensus       165 ~~~~~aL~l~-~~~~~r~-~~i~~  186 (198)
T PRK10370        165 ELWQKVLDLN-SPRVNRT-QLVES  186 (198)
T ss_pred             HHHHHHHhhC-CCCccHH-HHHHH
Confidence            9999999753 4554333 33343

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.61  E-value=9.3e-07  Score=68.08  Aligned_cols=109  Identities=6%  Similarity=-0.075  Sum_probs=82.6

Q ss_pred             HHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhh
Q 043204           28 LKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        28 ~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (504)
                      ..+|++..+..|+      .+..+...+...|++++|...|+...... +.+...|..+..++.+.|++++|...|+...
T Consensus        13 ~~~~~~al~~~p~------~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         13 EDILKQLLSVDPE------TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHHcCHH------HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4567777776443      24456777778888888888888888776 6677778888888888888888888888888


Q ss_pred             hCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204          108 QFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus       108 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      +.+ +.+..++..+..++...|+.++|...|+.....
T Consensus        86 ~l~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         86 MLD-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             hcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            765 345677778888888888888888888887654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.60  E-value=3.6e-06  Score=64.85  Aligned_cols=108  Identities=13%  Similarity=-0.041  Sum_probs=67.6

Q ss_pred             HHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC
Q 043204           66 EVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      .+|++..+..  |+.  +..+...+...|++++|...|+.....++ .+..++..+...+.+.|++++|...|++.....
T Consensus        14 ~~~~~al~~~--p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSVD--PET--VYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHcC--HHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4455555442  332  33455666667777777777777666552 345666677777777777777777777776542


Q ss_pred             CCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          146 EVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       146 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                        +.+...+..+..++...|+.++|...|+...+.
T Consensus        89 --p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 --ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             --CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              234455666666777777777777777776664

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

Probab=98.53  E-value=0.00024  Score=58.11  Aligned_cols=219  Identities=9%  Similarity=0.051  Sum_probs=143.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      ++-+--.|++..++..-+......    -+...-..+-++|...|++....   ..+.... .|+......+......-+
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~----~~~e~d~y~~raylAlg~~~~~~---~eI~~~~-~~~lqAvr~~a~~~~~e~   86 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK----TDVELDVYMYRAYLALGQYQIVI---SEIKEGK-ATPLQAVRLLAEYLELES   86 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc----chhHHHHHHHHHHHHcccccccc---ccccccc-CChHHHHHHHHHHhhCcc
Confidence            455556788888887766665431    24444455567777777665333   2333222 333333333333333334


Q ss_pred             ChhH-HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           95 QLNE-AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        95 ~~~~-a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      +.+. ..++.+.+.......+......-...|...+++++|++......       +......=+..+.+..+.+-|.+.
T Consensus        87 ~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~  159 (299)
T KOG3081|consen   87 NKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKE  159 (299)
T ss_pred             hhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4333 33555556555555543444444557888899999999887632       222333334557788889999999


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          174 FQEMDFQGCYPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       174 ~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      +++|.+-   -+..|.+.|..++.+    .+.+.+|.-+|+++     .....|+..+.+-...++...|++++|..+++
T Consensus       160 lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~-----s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~  231 (299)
T KOG3081|consen  160 LKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEEL-----SEKTPPTPLLLNGQAVCHLQLGRYEEAESLLE  231 (299)
T ss_pred             HHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHH-----hcccCCChHHHccHHHHHHHhcCHHHHHHHHH
Confidence            9999874   366788877777754    56788999999988     34477888899999999999999999999999


Q ss_pred             HHHHcCC
Q 043204          250 KILRKGL  256 (504)
Q Consensus       250 ~~~~~~~  256 (504)
                      +.+.+..
T Consensus       232 eaL~kd~  238 (299)
T KOG3081|consen  232 EALDKDA  238 (299)
T ss_pred             HHHhccC
Confidence            9988753

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.51  E-value=3.1e-05  Score=75.29  Aligned_cols=145  Identities=11%  Similarity=-0.085  Sum_probs=108.2

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ++..+-.|..+..+.|+.++|..+++...+.. |.+......+..++.+.+++++|+..+++....++ .+......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHHHH
Confidence            67778888888888888888888888888876 55666678888888888888888888888887763 33566677777


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILM  193 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  193 (504)
                      ++.+.|++++|..+|+++....  +-+..++..+...+...|+.++|...|+...+.. .|....|+..+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            8888888888888888887632  1235566777778888888888888888887642 23344444443

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

Probab=98.46  E-value=2e-05  Score=69.91  Aligned_cols=140  Identities=14%  Similarity=0.053  Sum_probs=96.9

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK  130 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  130 (504)
                      ..-.+...|++++|+..++.+.+.- |.|+..+......+.+.++.++|.+.++.+....+.. ....-.+..++.+.|+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~-~~l~~~~a~all~~g~  389 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALDPNS-PLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHhcCC
Confidence            3334556778888888888877664 5556666777778888888888888888877665332 4445567777888888


Q ss_pred             HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          131 LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      ..+|+.+++......  +.|...|..|..+|...|+..++.....+..                  ...|+++.|...+.
T Consensus       390 ~~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~------------------~~~G~~~~A~~~l~  449 (484)
T COG4783         390 PQEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLARAEGY------------------ALAGRLEQAIIFLM  449 (484)
T ss_pred             hHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHHHHHH------------------HhCCCHHHHHHHHH
Confidence            888888888776553  3345577888888888888877777665553                  33466666666666


Q ss_pred             HH
Q 043204          211 SM  212 (504)
Q Consensus       211 ~~  212 (504)
                      ..
T Consensus       450 ~A  451 (484)
T COG4783         450 RA  451 (484)
T ss_pred             HH
Confidence            55

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

Probab=98.44  E-value=1e-05  Score=62.04  Aligned_cols=96  Identities=7%  Similarity=0.011  Sum_probs=47.3

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ......+...+...|++++|.+.|+.+...+ +.+...+..+...+...|+++.|...++...+.+ +.+...+..+...
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            3334444455555555555555555555444 3344455555555555555555555555554443 2223334444444


Q ss_pred             HHhcchHHHHHHHHHHhh
Q 043204          125 MVKESKLEAAHILFLRSC  142 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~  142 (504)
                      +...|+++.|...|+...
T Consensus        95 ~~~~g~~~~A~~~~~~al  112 (135)
T TIGR02552        95 LLALGEPESALKALDLAI  112 (135)
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            445555555555554444

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

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

Probab=98.42  E-value=9.9e-06  Score=62.75  Aligned_cols=85  Identities=14%  Similarity=0.151  Sum_probs=35.5

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH--HHHHHHHHHHHhcCChhH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD--SVFATAIRTYARAGQLNE   98 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~   98 (504)
                      .+++..+...++.+.+.+|+......+.-.+...+...|++++|...|+.+......+..  .....+..++...|++++
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            444444444455555444432112222333334444445555555555554443311111  122333444444455555


Q ss_pred             HHHHHHH
Q 043204           99 AVSLFKN  105 (504)
Q Consensus        99 a~~~~~~  105 (504)
                      |+..++.
T Consensus       104 Al~~L~~  110 (145)
T PF09976_consen  104 ALATLQQ  110 (145)
T ss_pred             HHHHHHh
Confidence            5544443

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

Probab=98.37  E-value=0.0007  Score=60.55  Aligned_cols=240  Identities=14%  Similarity=0.088  Sum_probs=155.7

Q ss_pred             HHHHHhcC-ChhHHHHHHHHHHhc--CCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHH
Q 043204           15 SQIIKKQK-SPLTALKIFKEAKEK--YPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRT   89 (504)
Q Consensus        15 ~~~~~~~~-~~~~A~~~~~~~~~~--~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~   89 (504)
                      +..+.+.| ++..-.+.|+++...  +.+ +|    -..++..=.-..+..++...-+.+...+.  .|+...+...+.+
T Consensus       209 i~~L~raGydp~gM~~ff~rl~~~~~~~~-~~----p~yl~THPlp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~  283 (484)
T COG4783         209 ITTLVRAGYDPQGMPEFFERLADQLRYGG-QP----PEYLLTHPLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRA  283 (484)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHHhcCC-CC----ChHHhcCCCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHH
Confidence            44555666 556666777777742  211 11    12222222333455566666666664331  3455556666665


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      ......-..+..++.+..+.  .-...-|. ..-.+...|+.++|+..++.+...  .+-|...+......+.+.++.++
T Consensus       284 ~~~~~~~~~~~~~~~~~~~~--~~~aa~YG-~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~  358 (484)
T COG4783         284 KYEALPNQQAADLLAKRSKR--GGLAAQYG-RALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKE  358 (484)
T ss_pred             HhccccccchHHHHHHHhCc--cchHHHHH-HHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHH
Confidence            54443333333333333331  11122232 333455778999999999998755  33456666777788999999999


Q ss_pred             HHHHHHHhhhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHH
Q 043204          170 ALHVFQEMDFQGCYPD-RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQIL  248 (504)
Q Consensus       170 a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  248 (504)
                      |.+.++.+...  .|+ ....-.+..++.+.|++++|..+++..    .. ..+-|...|..|.++|...|+..++..-.
T Consensus       359 A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~----~~-~~p~dp~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         359 AIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRY----LF-NDPEDPNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             HHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHH----hh-cCCCCchHHHHHHHHHHHhCchHHHHHHH
Confidence            99999999887  455 555666778899999999999999877    33 34557889999999999999999988888


Q ss_pred             HHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          249 EKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      .+....                   .|.++.|...+....+.
T Consensus       432 AE~~~~-------------------~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         432 AEGYAL-------------------AGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHh-------------------CCCHHHHHHHHHHHHHh
Confidence            776543                   46788888877777665

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

Probab=98.31  E-value=4.7e-05  Score=58.39  Aligned_cols=117  Identities=12%  Similarity=0.048  Sum_probs=81.6

Q ss_pred             HHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCC
Q 043204           67 VIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWE  146 (504)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  146 (504)
                      .|+...+.. +.+......+...+...|++++|.+.|+.+.+.+ +.+...+..+...+...|++++|...+++..... 
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            455555554 3344556677777888888888888888887765 3356677778888888888888888888776542 


Q ss_pred             CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhH
Q 043204          147 VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESY  189 (504)
Q Consensus       147 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  189 (504)
                       +.+...+..+..++...|++++|.+.|+...+.  .|+...+
T Consensus        82 -p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  121 (135)
T TIGR02552        82 -PDDPRPYFHAAECLLALGEPESALKALDLAIEI--CGENPEY  121 (135)
T ss_pred             -CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--ccccchH
Confidence             334556666777788888888888888887775  3444443

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.30  E-value=1.6e-06  Score=48.22  Aligned_cols=33  Identities=45%  Similarity=0.777  Sum_probs=24.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC
Q 043204          440 TYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPD  472 (504)
Q Consensus       440 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  472 (504)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.27  E-value=0.00074  Score=54.92  Aligned_cols=191  Identities=17%  Similarity=0.150  Sum_probs=111.6

Q ss_pred             CCHHHHHHHHHHHHHHHhhCCCCcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChH
Q 043204          200 RRLNEATHLLYSMFWRISQKGSGEDIV-IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIE  278 (504)
Q Consensus       200 ~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  278 (504)
                      .+.++..+++.++..........++.. .|..++-+....|+.+.|...++++...-  |.+.....+-...+...|+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchh
Confidence            344555555555543322222444433 34445555566667777777777766542  444444444444555556666


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHH
Q 043204          279 GAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEM  358 (504)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  358 (504)
                      +|.++++.+++.++. |..++..-+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.+++++
T Consensus       104 ~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            666666666655432 5555555555555557777777777777665 44488888888888888888888888888755


Q ss_pred             hcCCCCccHHHHHHHHHHHHh---cCChHHHHHHHHHHHHh
Q 043204          359 VKGTFVPTVRVYNILLKGLCD---AGNSAVAVMYLKKMSKQ  396 (504)
Q Consensus       359 ~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  396 (504)
                      ...  +-+...+..+...+.-   ..+.+.+.++|.+..+.
T Consensus       182 l~~--P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LIQ--PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            543  2233344444444333   33455677777776654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.25  E-value=1.8e-06  Score=47.95  Aligned_cols=33  Identities=42%  Similarity=0.664  Sum_probs=27.0

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD  185 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  185 (504)
                      +||+++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            578888888888888888888888888888776

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.

>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=98.25  E-value=3.6e-05  Score=69.07  Aligned_cols=128  Identities=16%  Similarity=0.142  Sum_probs=98.9

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEM  125 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (504)
                      ..-..|+..+...++++.|.++|+++.+..  |+  ....+++.+...++..+|.+++++..+.. +.+...+..-.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344566677777888999999999988775  44  44457778888888888999988887654 34466666777778


Q ss_pred             HhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          126 VKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      .+.++.+.|+.+.+++...  .+.+..+|..|..+|...|+++.|+-.++.+.-.
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            8889999999999988754  2335668999999999999999999999888753

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.25  E-value=1.9e-06  Score=47.47  Aligned_cols=33  Identities=33%  Similarity=0.527  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP  184 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  184 (504)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            466777777777777777777777777777665

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.24  E-value=2.5e-06  Score=46.94  Aligned_cols=33  Identities=33%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             chHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 043204          439 ETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLP  471 (504)
Q Consensus       439 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  471 (504)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            355666666666666666666666666655554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.24  E-value=0.00056  Score=55.60  Aligned_cols=188  Identities=11%  Similarity=0.017  Sum_probs=114.4

Q ss_pred             hcCChhHHHHHHHHHHhcCC-C-CCcchh-cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204           20 KQKSPLTALKIFKEAKEKYP-N-YRHNGP-VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQL   96 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p-~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (504)
                      ...++++.++++..+....+ + ..++.. .|..++-+....|+.+.|..+++.+...- +.+..+-..-...+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            34567777777777765433 2 344443 34555555666777777888777776553 22333322222334456777


Q ss_pred             hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043204           97 NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQE  176 (504)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  176 (504)
                      ++|+++|+.+.+.+ +.+..++-.-+...-..|+.-+|++-+....+.  +..|...|.-+...|...|++++|.-.+++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            88888888777766 444555655555555666666777766666554  345677777788888888888888888887


Q ss_pred             hhhCCCCCCHhhHHHHHHHHH---hcCCHHHHHHHHHHH
Q 043204          177 MDFQGCYPDRESYHILMKGLC---NDRRLNEATHLLYSM  212 (504)
Q Consensus       177 ~~~~~~~p~~~~~~~l~~~~~---~~~~~~~a~~~~~~~  212 (504)
                      +.-.. +.++..+..+...+.   ...+.+.+.++|.+.
T Consensus       180 ~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  180 LLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            77653 223444444444433   334566677777766

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

Probab=98.18  E-value=0.00018  Score=55.76  Aligned_cols=125  Identities=12%  Similarity=0.077  Sum_probs=75.0

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH---HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccH--HHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKD---SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWT--QSFNTL  121 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l  121 (504)
                      .|..++..+ ..++...+...++.+.+.. +.+.   .....+...+...|++++|...|+.+......+..  .....|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            345555444 3677777777777777654 3331   22344556677778888888888887776532321  233445


Q ss_pred             HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 043204          122 LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQE  176 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  176 (504)
                      ...+...|++++|+..++.....   ......+......|.+.|++++|...|+.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~---~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE---AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc---chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            56666677777777777553221   22333455566667777777777776654

>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=98.18  E-value=0.00014  Score=65.32  Aligned_cols=126  Identities=17%  Similarity=0.107  Sum_probs=98.4

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHH
Q 043204          296 LASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLK  375 (504)
Q Consensus       296 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  375 (504)
                      ......++..+...++++.|+.+|+++.+..  |+  ....++..+...++-.+|.+++++.+...  +-+......-..
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~  242 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAE  242 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            3444555666666689999999999999874  33  44567888888888899999999877554  345666666677


Q ss_pred             HHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHH
Q 043204          376 GLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASRVLEEML  430 (504)
Q Consensus       376 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  430 (504)
                      .+.+.++++.|+++.+++.+.   .|+ ..+|..|..+|.+.|+++.|+..++.+.
T Consensus       243 fLl~k~~~~lAL~iAk~av~l---sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVEL---SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHh---CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            788999999999999998853   565 4589999999999999999998888764

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

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.14  E-value=0.005  Score=57.71  Aligned_cols=124  Identities=7%  Similarity=0.003  Sum_probs=60.7

Q ss_pred             cchhcHHHHHHHHhccCChhHHHHHHHHhhc-CCCCc--------cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCc
Q 043204           43 HNGPVYASMIGILSESNRITEMKEVIDQMKG-DSCEC--------KDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVN  113 (504)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  113 (504)
                      |-+..|..+.......-.++.|...|=+... .|++.        +...-.+=+.  +--|.+++|+++|-++-.++   
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~drrD---  764 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRD---  764 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhh---
Confidence            3555666666555555555555555544332 12111        0001111111  22366777777776665443   


Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHh
Q 043204          114 WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEM  177 (504)
Q Consensus       114 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  177 (504)
                            ..|..+.+.|++-...++++.-..+.+...-...|+.+...++....+++|.++|..-
T Consensus       765 ------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~  822 (1189)
T KOG2041|consen  765 ------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYC  822 (1189)
T ss_pred             ------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence                  2344555666666666665543222111122345666666666666666666666544

>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=98.13  E-value=3.1e-05  Score=55.18  Aligned_cols=93  Identities=16%  Similarity=0.182  Sum_probs=57.4

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYA   91 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (504)
                      ..+...+...|++++|+..|+++.+..|.   +...+..+...+...+++++|.+.++...... +.+..++..+...+.
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPD---NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCc---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            34555666667777777777776665443   33555566666666667777777776666554 344455666666666


Q ss_pred             hcCChhHHHHHHHHhhh
Q 043204           92 RAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~  108 (504)
                      ..|+++.|...+....+
T Consensus        80 ~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          80 KLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhHHHHHHHHHHHHc
Confidence            66666666666665544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.13  E-value=5.6e-05  Score=56.44  Aligned_cols=101  Identities=8%  Similarity=0.009  Sum_probs=75.3

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC--ccHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCE--CKDSVFATAI   87 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~   87 (504)
                      ++-.+...+.+.|++++|...|+.+.+..|+.......+..+..++.+.|+++.|...|+.+......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            34556677788888899999998888877653333456667888888888888888888888765311  1245677777


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCC
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      .++.+.|+.+.|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            88888888888888888887765

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

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

Probab=98.11  E-value=0.0071  Score=55.03  Aligned_cols=151  Identities=14%  Similarity=0.053  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHH
Q 043204          347 VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG---NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEAS  423 (504)
Q Consensus       347 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  423 (504)
                      -+++..+++..+... ..-+..+|..+...--..-   ..+....+++++.......|+ .+|..+++.-.+..-++.|.
T Consensus       309 t~e~~~~yEr~I~~l-~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR  386 (656)
T KOG1914|consen  309 TDEAASIYERAIEGL-LKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAAR  386 (656)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHH
Confidence            355666666533221 1223344444433211111   356677788888776445554 46788888888999999999


Q ss_pred             HHHHHHHhcCcCC-CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHhcCCCchhHHHHHHHHhh
Q 043204          424 RVLEEMLIRSYWP-CVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVW-SSLVASVCCNTADLNVCRKTLEQLS  501 (504)
Q Consensus       424 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~-~~ll~~~~~~~~~~~~a~~~~~~~~  501 (504)
                      .+|.++.+.+..+ ++.++++++.-|+ .++.+-|.++|+--++.  -+|.+.| ...+.-+..- ++-+.+..+|++++
T Consensus       387 ~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~l-Ndd~N~R~LFEr~l  462 (656)
T KOG1914|consen  387 KIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHL-NDDNNARALFERVL  462 (656)
T ss_pred             HHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHh-CcchhHHHHHHHHH
Confidence            9999999987766 6667777776655 58889999999987653  2444333 3444433333 33777888888877


Q ss_pred             cC
Q 043204          502 SC  503 (504)
Q Consensus       502 ~~  503 (504)
                      .+
T Consensus       463 ~s  464 (656)
T KOG1914|consen  463 TS  464 (656)
T ss_pred             hc
Confidence            65

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

Probab=98.09  E-value=7.6e-06  Score=56.42  Aligned_cols=82  Identities=15%  Similarity=0.190  Sum_probs=54.2

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAV  100 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (504)
                      +|+++.|+.+|+++.+..|. .++...+..+..++.+.|++++|..+++. .+.+ +.+......+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~-~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT-NPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG-THHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            57788888888888887553 22344555577888888888888888877 3333 233344445577778888888888


Q ss_pred             HHHHH
Q 043204          101 SLFKN  105 (504)
Q Consensus       101 ~~~~~  105 (504)
                      ++|++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            87764

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.07  E-value=0.00077  Score=57.01  Aligned_cols=180  Identities=7%  Similarity=-0.031  Sum_probs=90.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHH---HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSV---FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .....+...|++++|.+.|+.+.... |-+...   .-.++.++.+.++++.|...|++..+..+......+...+.+.+
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHh
Confidence            34445556677777777777776654 222222   23445666677777777777777665543332233333333332


Q ss_pred             h--cc---------------h---HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH
Q 043204          127 K--ES---------------K---LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR  186 (504)
Q Consensus       127 ~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  186 (504)
                      .  .+               +   ...|...|+++.                .-|=.+.-..+|...+..+...   .-.
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li----------------~~yP~S~ya~~A~~rl~~l~~~---la~  176 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV----------------RGYPNSQYTTDATKRLVFLKDR---LAK  176 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH----------------HHCcCChhHHHHHHHHHHHHHH---HHH
Confidence            1  10               1   122333333333                3333333344444433333321   011


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          187 ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       187 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      .-+ .+.+.|.+.|.+..|..-++.+.....  +.+........++.+|...|..++|.++...+.
T Consensus       177 ~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp--~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        177 YEL-SVAEYYTKRGAYVAVVNRVEQMLRDYP--DTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHH-HHHHHHHHcCchHHHHHHHHHHHHHCC--CCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            111 345556666777777777666654322  233345566666677777777777766665544

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

Probab=98.04  E-value=0.00016  Score=62.85  Aligned_cols=132  Identities=11%  Similarity=0.130  Sum_probs=76.3

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh-cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR-AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEM  125 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (504)
                      +|..+++..-+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|.++|+...+. ...+...+...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45666666666666777777777766443 3334444444333222 45555577777766553 233455566666666


Q ss_pred             HhcchHHHHHHHHHHhhcCCCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          126 VKESKLEAAHILFLRSCYGWEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      ...++.+.|..+|++......... ....|...+..=.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            667777777777777665432222 2346777777777777777777777777664

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.

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

Probab=98.04  E-value=9.3e-05  Score=66.78  Aligned_cols=121  Identities=13%  Similarity=0.091  Sum_probs=84.0

Q ss_pred             CcchhhhhhccccCCCCChHHHHHHHHHHHHc--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHH
Q 043204          259 PKSRRHRIDLCPCNDGEDIEGAKSLINEALIR--GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEA  336 (504)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  336 (504)
                      -+.....+.+..+....+++.+..++......  ....-..|..+++..|...|..+.++.++..=...|+-||..+++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            34444555567777777788888887777655  2222345556788888888888888888888788888888888888


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhc
Q 043204          337 KLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDA  380 (504)
Q Consensus       337 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  380 (504)
                      |++.+.+.|++..|.++...+|.+. ...+..|+...+.+|.+.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe-~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQE-EFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhh-ccCCchHHHHHHHHHHHh
Confidence            8888888888888888888755444 344555655555555554

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 [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.99  E-value=0.018  Score=55.78  Aligned_cols=201  Identities=10%  Similarity=0.035  Sum_probs=131.2

Q ss_pred             CCCCCCchHHHHH--HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHH
Q 043204            5 WPRLLTPTYLSQI--IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSV   82 (504)
Q Consensus         5 ~p~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (504)
                      +|+... ...+.+  +.+.|+.++|..+++......+.   |..|...+-.+|.+.++.++|..+|++.....  |+...
T Consensus        39 ~Pn~~~-a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~---D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~--P~eel  112 (932)
T KOG2053|consen   39 HPNALY-AKVLKALSLFRLGKGDEALKLLEALYGLKGT---DDLTLQFLQNVYRDLGKLDEAVHLYERANQKY--PSEEL  112 (932)
T ss_pred             CCCcHH-HHHHHHHHHHHhcCchhHHHHHhhhccCCCC---chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC--CcHHH
Confidence            344433 333444  44799999999999888766444   88899999999999999999999999999875  66888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc----------hHHHHHHHHHHhhcCCCCcchHH
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES----------KLEAAHILFLRSCYGWEVKSRIQ  152 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~  152 (504)
                      ...+..+|.+-+++.+-.++--++.+ +.+-.++.+=++++.+....          -..-|.+.++.+.+..|.--+..
T Consensus       113 l~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~a  191 (932)
T KOG2053|consen  113 LYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEA  191 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHH
Confidence            88888899988877654433333333 22222333334444444321          13456777777777654222222


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHH-HhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQ-EMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      -...-...+...|++++|.+++. ...+.-..-+...-+.-+..+...++|.+..++-.++
T Consensus       192 E~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  192 EIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            22222334566789999999994 4444323334444455667777888898888887777

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.98  E-value=0.00012  Score=55.44  Aligned_cols=104  Identities=8%  Similarity=-0.098  Sum_probs=78.4

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +......+...+...|++++|..+|+.+...+ +-+..-|..|..++-..|++++|+..|......+ +.++..+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            33444566667778888888888888888776 5666667888888888888888888888887776 355677778888


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcc
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKS  149 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (504)
                      ++...|+.+.|.+.|+.....-+..|
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhccCh
Confidence            88888888888888887765433333

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

Probab=97.97  E-value=0.00021  Score=64.57  Aligned_cols=125  Identities=10%  Similarity=0.102  Sum_probs=95.3

Q ss_pred             CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCc-chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhh
Q 043204          110 NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVK-SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRES  188 (504)
Q Consensus       110 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  188 (504)
                      +.+.+......+++.+....+++.+..++.+....+... .-..|..++++.|.+.|..+.++.+++.=...|+-||..|
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            334455666777888888888888888888776543211 1123456899999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ  238 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  238 (504)
                      ++.||..+.+.|++..|.++...|    ...+...+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~----~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEM----MLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHH----HHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999888    4444445666666666555554

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 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=0.011  Score=52.08  Aligned_cols=87  Identities=17%  Similarity=0.037  Sum_probs=54.8

Q ss_pred             CCCCChHHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhh---HHHHHHHHhcCC
Q 043204          272 NDGEDIEGAKSLINEALIR---GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVM---YEAKLAALFKDG  345 (504)
Q Consensus       272 ~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~  345 (504)
                      .+.|.+..|.+.+.+.+..   +..++...|........+.|+..+|+.--+.....    |...   +..-..++.-.+
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555533   23455666666666777778888888888777764    3322   222234555678


Q ss_pred             CHHHHHHHHHHHHhcCC
Q 043204          346 MVDEALEVIEEEMVKGT  362 (504)
Q Consensus       346 ~~~~a~~~~~~~~~~~~  362 (504)
                      ++++|.+-|+++|+...
T Consensus       336 ~~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHHHHHHHHHHHhhcc
Confidence            88888888888776543

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

Probab=97.97  E-value=0.00016  Score=65.32  Aligned_cols=93  Identities=11%  Similarity=0.066  Sum_probs=80.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      ....+...|++++|+..|+++++..|+   +...|..+..++...|++++|+..++++.+.. +.+...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~---~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN---NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHh
Confidence            345666789999999999999999887   78888888899999999999999999998887 66777888888999999


Q ss_pred             CChhHHHHHHHHhhhCC
Q 043204           94 GQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~  110 (504)
                      |+++.|+..|+...+.+
T Consensus        84 g~~~eA~~~~~~al~l~  100 (356)
T PLN03088         84 EEYQTAKAALEKGASLA  100 (356)
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999988765

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

Probab=97.96  E-value=1.4e-05  Score=42.82  Aligned_cols=29  Identities=41%  Similarity=0.690  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 043204          440 TYNVLIRGLCSIGKQYEAVMWLEEMISQA  468 (504)
Q Consensus       440 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  468 (504)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

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

>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=97.96  E-value=3.7e-05  Score=50.50  Aligned_cols=62  Identities=13%  Similarity=0.218  Sum_probs=49.7

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHH
Q 043204           19 KKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFAT   85 (504)
Q Consensus        19 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (504)
                      ...|++++|++.|+.+.+.+|+   +...+..+..+|.+.|++++|.++++.+....  |+...|..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~--~~~~~~~~   63 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD---NPEARLLLAQCYLKQGQYDEAEELLERLLKQD--PDNPEYQQ   63 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT---SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG--TTHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCHHHHHH
Confidence            4678899999999999998887   88888889999999999999999999988875  44333433

...

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

Probab=97.95  E-value=0.012  Score=52.28  Aligned_cols=128  Identities=13%  Similarity=0.105  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHH-HHHHHH
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTKG-FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRV-YNILLK  375 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~  375 (504)
                      .|...++...+...++.|..+|-++.+.| +.+++..+++++..++ .|+..-|..+|+-.|...   ||... -.-.+.
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f---~d~~~y~~kyl~  474 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF---PDSTLYKEKYLL  474 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC---CCchHHHHHHHH
Confidence            34444555555555556666666665555 3445555555555443 345555555555444443   22222 222333


Q ss_pred             HHHhcCChHHHHHHHHHHHHhcCCCCc--hhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          376 GLCDAGNSAVAVMYLKKMSKQVGCVAN--GETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       376 ~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      .+...++-+.|..+|+....+  +..+  ...|..+|+--..-|+...+..+=++|.+
T Consensus       475 fLi~inde~naraLFetsv~r--~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         475 FLIRINDEENARALFETSVER--LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH--HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            444555555566666544332  1222  33555555555555555555555444444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.90  E-value=0.0065  Score=53.17  Aligned_cols=208  Identities=14%  Similarity=0.126  Sum_probs=113.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCC----C-ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQFNC----V-NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  160 (504)
                      ....|...|++++|.+.|....+...    . .-...|......|.+. ++++|...+                ...+..
T Consensus        41 Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~----------------~~A~~~  103 (282)
T PF14938_consen   41 AANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECY----------------EKAIEI  103 (282)
T ss_dssp             HHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHH----------------HHHHHH
T ss_pred             HHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHH----------------HHHHHH
Confidence            35667777788888777776532111    1 0111222222222222 444444443                444566


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhc
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCND-RRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQ  238 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  238 (504)
                      |...|++..|-+++..+-               ..|... |++++|.+.|++..+.....+.... ..++..+...+.+.
T Consensus       104 y~~~G~~~~aA~~~~~lA---------------~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen  104 YREAGRFSQAAKCLKELA---------------EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             HHHCT-HHHHHHHHHHHH---------------HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT
T ss_pred             HHhcCcHHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHh
Confidence            777787777766665544               345566 7899999999888666556552222 34567788889999


Q ss_pred             CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCChhHHHH
Q 043204          239 GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSL-ASYSAMAIDLYNEGRIVEGDK  317 (504)
Q Consensus       239 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~  317 (504)
                      |++++|.++|+++.......+...                               .+. ..+-..+-++...|+...|..
T Consensus       169 ~~y~~A~~~~e~~~~~~l~~~l~~-------------------------------~~~~~~~l~a~l~~L~~~D~v~A~~  217 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKKCLENNLLK-------------------------------YSAKEYFLKAILCHLAMGDYVAARK  217 (282)
T ss_dssp             T-HHHHHHHHHHHHHTCCCHCTTG-------------------------------HHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhcccccc-------------------------------hhHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999887543211100                               011 122223335555688888888


Q ss_pred             HHHHHHHCC--CCc--chhhHHHHHHHHhc--CCCHHHHHHHHHH
Q 043204          318 VLDEMRTKG--FWP--SLVMYEAKLAALFK--DGMVDEALEVIEE  356 (504)
Q Consensus       318 ~~~~~~~~~--~~~--~~~~~~~l~~~~~~--~~~~~~a~~~~~~  356 (504)
                      .+++.....  +..  .......|+.+|-.  ...++.++.-|+.
T Consensus       218 ~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~  262 (282)
T PF14938_consen  218 ALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDS  262 (282)
T ss_dssp             HHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTT
T ss_pred             HHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcc
Confidence            888877543  211  12344455655543  2345555555544

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

Probab=97.89  E-value=3.8e-05  Score=52.94  Aligned_cols=82  Identities=26%  Similarity=0.257  Sum_probs=39.0

Q ss_pred             cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHH
Q 043204          380 AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVM  459 (504)
Q Consensus       380 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  459 (504)
                      .|+++.|+.+++++.+.....++...+-.+..+|.+.|++++|..+++. .+.+ ..+......+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3555666666666655411111333334455666666666666666655 2211 1122233334555566666666666


Q ss_pred             HHHH
Q 043204          460 WLEE  463 (504)
Q Consensus       460 ~~~~  463 (504)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6554

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

Probab=97.89  E-value=1.9e-05  Score=42.19  Aligned_cols=29  Identities=45%  Similarity=0.771  Sum_probs=20.6

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcC
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  433 (504)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

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.

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

Probab=97.88  E-value=0.00046  Score=48.46  Aligned_cols=79  Identities=13%  Similarity=0.185  Sum_probs=63.5

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCC-CCCHhhHHHHHHHHHhcC--------CHHHHHHHHHHHHHHHhhCCCCcCH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGC-YPDRESYHILMKGLCNDR--------RLNEATHLLYSMFWRISQKGSGEDI  225 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  225 (504)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|    ...+++|+.
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDi----L~~~lKP~~  104 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDI----LSNKLKPND  104 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHH----HHhccCCcH
Confidence            4455666667999999999999999999 899999999998876543        345567778887    788899999


Q ss_pred             HHHHHHHHHHHh
Q 043204          226 VIYRTLLFALCD  237 (504)
Q Consensus       226 ~~~~~l~~~~~~  237 (504)
                      .+|+.++..+.+
T Consensus       105 etYnivl~~Llk  116 (120)
T PF08579_consen  105 ETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

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 [, , ].

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.86  E-value=4.6e-05  Score=49.46  Aligned_cols=59  Identities=19%  Similarity=0.195  Sum_probs=42.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      +...+...|++++|+..|+++.+..|+   +...+..+..++...|++++|..+|+++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD---NPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT---HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            345667777777777777777777666   77777777777777777777777777776553

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

Probab=97.86  E-value=0.00031  Score=61.10  Aligned_cols=129  Identities=11%  Similarity=0.036  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHH-HhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAA-LFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKG  376 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  376 (504)
                      +|..++...-+.+..+.|..+|.+.++.+. .+...|...... |...++.+.|..+|+..++..  ..+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            344444444444445555555555543211 122222222222 111333444555555444332  2333344444444


Q ss_pred             HHhcCChHHHHHHHHHHHHhcCCCCch---hhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          377 LCDAGNSAVAVMYLKKMSKQVGCVANG---ETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       377 ~~~~~~~~~a~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      +...++.+.|..+|++....  +.++.   ..|...+..-.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44455555555555554432  11111   2444444444444555555554444444

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.85  E-value=0.0075  Score=46.76  Aligned_cols=134  Identities=14%  Similarity=0.012  Sum_probs=81.4

Q ss_pred             CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHH
Q 043204           77 ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNL  156 (504)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  156 (504)
                      -|...--..|..+..+.|+..+|...|++....-...|......+.++....+++..|...++++.+-++..-+..+.-.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            35555555666777777777777777777766555566666666677777777777777777776654322222223345


Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      +.+.+...|.++.|+..|+.....  .|+...-..-...+.+.|+.+++..-+..+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            566777777777777777777765  333332222223345566666655555544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.85  E-value=0.00095  Score=49.70  Aligned_cols=97  Identities=16%  Similarity=0.169  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCC----cchHHH
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPC----VETYNV  443 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~  443 (504)
                      ++..+...+...|++++|.+.|..+.+...-.+ ....+..+..++.+.|++++|...++.+....  |+    ...+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHH
Confidence            344555566677777777777777765411111 12345556677777777777777777776642  22    344566


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHc
Q 043204          444 LIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       444 l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                      +..++...|++++|.+.++++.+.
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHH
Confidence            666777777777777777777754

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.84  E-value=0.00034  Score=49.59  Aligned_cols=91  Identities=12%  Similarity=0.113  Sum_probs=45.3

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE  128 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (504)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...++++.|.+.|+...+.... +..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHH
Confidence            344445555566666666665555443 233344555555555555555555555555443321 123444444444555


Q ss_pred             chHHHHHHHHHHh
Q 043204          129 SKLEAAHILFLRS  141 (504)
Q Consensus       129 ~~~~~a~~~~~~~  141 (504)
                      |+.+.|...+...
T Consensus        82 ~~~~~a~~~~~~~   94 (100)
T cd00189          82 GKYEEALEAYEKA   94 (100)
T ss_pred             HhHHHHHHHHHHH
Confidence            5555555544443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.83  E-value=0.002  Score=49.03  Aligned_cols=91  Identities=11%  Similarity=0.021  Sum_probs=46.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      +...+...|++++|.++|+.+...++. +..-|-.|...+...|++++|+..|.....-..  -|...+-.+..++...|
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~--ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI--DAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCchHHHHHHHHHHHcC
Confidence            334444555666666666555554422 233444555555555666666666555543321  22334444555555556


Q ss_pred             CHHHHHHHHHHhhh
Q 043204          166 RSDLALHVFQEMDF  179 (504)
Q Consensus       166 ~~~~a~~~~~~~~~  179 (504)
                      +.+.|.+.|+....
T Consensus       118 ~~~~A~~aF~~Ai~  131 (157)
T PRK15363        118 NVCYAIKALKAVVR  131 (157)
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666655555443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.83  E-value=0.0012  Score=57.70  Aligned_cols=163  Identities=13%  Similarity=0.145  Sum_probs=86.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhh----CCCC-ccHHHHHHHHHHHHhc-chHHHHHHHHHHhhcCC---C-CcchHH
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQ----FNCV-NWTQSFNTLLKEMVKE-SKLEAAHILFLRSCYGW---E-VKSRIQ  152 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~---~-~~~~~~  152 (504)
                      |......|.+. +++.|.+.++...+    .|-. .-...+..+...|-.. |+++.|++.|++...-.   + ...-..
T Consensus        78 ~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~  156 (282)
T PF14938_consen   78 YEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAE  156 (282)
T ss_dssp             HHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHH
Confidence            33333443333 55566555554432    2211 1123455566666666 78888888887765311   1 111234


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC-----CHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC--CCCcC
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP-----DRE-SYHILMKGLCNDRRLNEATHLLYSMFWRISQK--GSGED  224 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-----~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~  224 (504)
                      ++..+...+.+.|++++|.++|++....-...     +.. .|-..+-++...||+..|...+++.    ...  +...+
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~----~~~~~~F~~s  232 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERY----CSQDPSFASS  232 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH----GTTSTTSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHH----HhhCCCCCCc
Confidence            56667788888999999999998887643221     121 2223344566778898998888877    332  22222


Q ss_pred             --HHHHHHHHHHHHhcCc---hhHHHHHHHHH
Q 043204          225 --IVIYRTLLFALCDQGK---IQDAMQILEKI  251 (504)
Q Consensus       225 --~~~~~~l~~~~~~~g~---~~~a~~~~~~~  251 (504)
                        ......|+.++-. ||   ++.+..-|+.+
T Consensus       233 ~E~~~~~~l~~A~~~-~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  233 REYKFLEDLLEAYEE-GDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHHHT-T-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHHHh-CCHHHHHHHHHHHccc
Confidence              3445556666643 33   44444444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.81  E-value=0.0029  Score=52.16  Aligned_cols=61  Identities=13%  Similarity=0.084  Sum_probs=45.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      ...+...|++.+|...|+.+...+|+-.....+.-.++.++.+.|+++.|...++...+..
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3456678889999999999998888755556667777888888899999999888887754

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.81  E-value=0.00071  Score=63.92  Aligned_cols=63  Identities=13%  Similarity=0.005  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          115 TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       115 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      ...|..+.-.....|++++|...+++...-   .|+...|..+...+...|+.++|.+.+++....
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344444444444556666666666665533   234555666666666666666666666665544

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

Probab=97.80  E-value=0.00045  Score=48.52  Aligned_cols=80  Identities=10%  Similarity=0.213  Sum_probs=57.6

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCC-CccHHHHHHHHHHHHhcC--------ChhHHHHHHHHhhhCCCCccHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSC-ECKDSVFATAIRTYARAG--------QLNEAVSLFKNLSQFNCVNWTQSF  118 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  118 (504)
                      -...|..+...+++.....+|+.+.+.|+ .|+..+|+.++...++..        ..-..+.+|+.|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34556666677888888888888888888 788888888888776643        233456777777777777777777


Q ss_pred             HHHHHHHHh
Q 043204          119 NTLLKEMVK  127 (504)
Q Consensus       119 ~~ll~~~~~  127 (504)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            777766543

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 [, , ].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.80  E-value=0.00029  Score=56.23  Aligned_cols=115  Identities=10%  Similarity=-0.022  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCc--cHHHHHHHHHHHHhcCChhHHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCEC--KDSVFATAIRTYARAGQLNEAVS  101 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~  101 (504)
                      +..+...+..+.+..+. ......|..+...+...|++++|...|+........+  ...++..+..++...|++++|+.
T Consensus        15 ~~~~~~~l~~~~~~~~~-~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~   93 (168)
T CHL00033         15 FTIVADILLRILPTTSG-EKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALE   93 (168)
T ss_pred             cccchhhhhHhccCCch-hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHH
Confidence            44455555555433322 2245567788888888899999999999987654222  23478888899999999999999


Q ss_pred             HHHHhhhCCCCccHHHHHHHHHHHH-------hcchHHHHHHHHHH
Q 043204          102 LFKNLSQFNCVNWTQSFNTLLKEMV-------KESKLEAAHILFLR  140 (504)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~ll~~~~-------~~~~~~~a~~~~~~  140 (504)
                      .++...+... ....++..+...+.       ..|+++.|...+++
T Consensus        94 ~~~~Al~~~~-~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         94 YYFQALERNP-FLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHHhCc-CcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            9998876542 22445566666666       77777755554443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.78  E-value=0.029  Score=54.13  Aligned_cols=55  Identities=5%  Similarity=0.102  Sum_probs=38.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          372 ILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       372 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      -++..+.+..+++.+..+.+...+.     ++..|..++..+++.+.++.-.++..+..+
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~~-----~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~  764 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGKE-----DPSLWLHALKYFVSEESIEDCYEIVYKVLE  764 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCcc-----ChHHHHHHHHHHhhhcchhhHHHHHHHHHH
Confidence            3556677778888888877776543     777888888888888866665555544443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.78  E-value=0.00074  Score=54.11  Aligned_cols=114  Identities=11%  Similarity=0.030  Sum_probs=60.7

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc--HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGDSCECK--DSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ..+..+...+...|++++|...|++..+....++  ...+..+...+.+.|++++|...+++..+.... +...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            3455555556666666666666666654331111  234555666666666666666666665554321 2334444455


Q ss_pred             HHHhcch--------------HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204          124 EMVKESK--------------LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus       124 ~~~~~~~--------------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      .+...|+              +++|.+.+++....   .|+  .+..++.-+...|
T Consensus       115 ~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~---~p~--~~~~~~~~~~~~~  165 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL---APN--NYIEAQNWLKTTG  165 (172)
T ss_pred             HHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh---Cch--hHHHHHHHHHhcC
Confidence            5555444              56777777777643   233  2344444444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.72  E-value=0.0023  Score=60.58  Aligned_cols=145  Identities=13%  Similarity=-0.018  Sum_probs=97.0

Q ss_pred             CCCcchhhHHHHHHHHhc--C---CCHHHHHHHHHHHHhcCCCCcc-HHHHHHHHHHHHhcC--------ChHHHHHHHH
Q 043204          326 GFWPSLVMYEAKLAALFK--D---GMVDEALEVIEEEMVKGTFVPT-VRVYNILLKGLCDAG--------NSAVAVMYLK  391 (504)
Q Consensus       326 ~~~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~--------~~~~a~~~~~  391 (504)
                      +.+.+...|...+++...  .   ++.+.|..+|++++...   |+ ...|..+..++....        +...+.+...
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld---P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE---PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            445577888888776543  2   23778899999866654   44 334444433332211        1233334344


Q ss_pred             HHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 043204          392 KMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLP  471 (504)
Q Consensus       392 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  471 (504)
                      ..........+...|.++.-.....|++++|...++++.+.+  |+...|..+...+...|+.++|.+.+++...  +.|
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRP  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCC
Confidence            333221133345677777767777899999999999999876  7888899999999999999999999999984  467


Q ss_pred             CHHHHH
Q 043204          472 DISVWS  477 (504)
Q Consensus       472 ~~~~~~  477 (504)
                      ..++|.
T Consensus       485 ~~pt~~  490 (517)
T PRK10153        485 GENTLY  490 (517)
T ss_pred             CCchHH
Confidence            766643

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.72  E-value=0.023  Score=48.21  Aligned_cols=180  Identities=14%  Similarity=0.075  Sum_probs=98.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHH--HHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHh
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQ--SFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLC  162 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  162 (504)
                      .....+...|++++|.+.|+.+....+.+...  ..-.+..++.+.++++.|...+++.....+..|+.. +...+.+.+
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~-~a~Y~~g~~  115 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNID-YVLYMRGLT  115 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchH-HHHHHHHHh
Confidence            34444556788888888888877654333211  123456677788888888888888877655555532 222222221


Q ss_pred             h--c---------------CCH---HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC
Q 043204          163 Q--C---------------RRS---DLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG  222 (504)
Q Consensus       163 ~--~---------------~~~---~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  222 (504)
                      .  .               .|.   ..|.+.|+++.+.  -|+.             .-..+|...+..+..++.+.   
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~la~~---  177 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDRLAKY---  177 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHHHHHH---
Confidence            1  1               122   3444555555554  3433             22333433333332111111   


Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC-CCcchhhhhhccccCCCCChHHHHHHHHHHH
Q 043204          223 EDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLK-APKSRRHRIDLCPCNDGEDIEGAKSLINEAL  288 (504)
Q Consensus       223 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  288 (504)
                           --.+...|.+.|.+..|..-++.+++.-.. +........+...+...|..++|......+.
T Consensus       178 -----e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 -----ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -----HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence                 114556677777887788878777765322 2233344455667777777777777665544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.65  E-value=0.04  Score=49.30  Aligned_cols=446  Identities=12%  Similarity=0.098  Sum_probs=197.2

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCC--CCcc-hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH--HH
Q 043204           17 IIKKQKSPLTALKIFKEAKEKYPN--YRHN-GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT--YA   91 (504)
Q Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~p~--~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~   91 (504)
                      .+.++++.++|..+|.++-+....  .... ...-+.++++|... +.+.....+....+..  | ...|-.+..+  +-
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            455789999999999999876321  0000 12245667777654 5666666666665543  2 2233333333  34


Q ss_pred             hcCChhHHHHHHHHhhhC--CCCc-cH-----------HHHHHHHHHHHhcchHHHHHHHHHHhhcCC---CCcchHHHH
Q 043204           92 RAGQLNEAVSLFKNLSQF--NCVN-WT-----------QSFNTLLKEMVKESKLEAAHILFLRSCYGW---EVKSRIQSL  154 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~--~~~~-~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~  154 (504)
                      +.+.+.+|.+.+....+.  +..+ ..           ..=+..+..+...|.+.++..+++++....   ...=++.+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            678899999988877654  2222 11           111334445556666666666666654321   111234455


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhh---CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDF---QGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTL  231 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l  231 (504)
                      +.++-.++++        +|-++.+   ..+-||   |.-++..|.+.=..      ++..    .-..+.|.......+
T Consensus       171 d~~vlmlsrS--------YfLEl~e~~s~dl~pd---yYemilfY~kki~~------~d~~----~Y~k~~peeeL~s~i  229 (549)
T PF07079_consen  171 DRAVLMLSRS--------YFLELKESMSSDLYPD---YYEMILFYLKKIHA------FDQR----PYEKFIPEEELFSTI  229 (549)
T ss_pred             HHHHHHHhHH--------HHHHHHHhcccccChH---HHHHHHHHHHHHHH------Hhhc----hHHhhCcHHHHHHHH
Confidence            5544444332        2222221   112222   22222222211000      0000    001122333333333


Q ss_pred             HHHHHhc--CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC----ChhhHHHHHHH
Q 043204          232 LFALCDQ--GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP----SLASYSAMAID  305 (504)
Q Consensus       232 ~~~~~~~--g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~ll~~  305 (504)
                      +....-.  ....--.++++.....-+.|........+..-...  +.+++..+.+.+....+.+    -..+|..++..
T Consensus       230 mqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~  307 (549)
T PF07079_consen  230 MQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSF  307 (549)
T ss_pred             HHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3322211  12223333444443343444433333332222222  4444444444443222111    23567777788


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCcchhhH-------HHHHHHHhc-CCC---HHHHHHHHHHHHhcCCCCccHH-HHHHH
Q 043204          306 LYNEGRIVEGDKVLDEMRTKGFWPSLVMY-------EAKLAALFK-DGM---VDEALEVIEEEMVKGTFVPTVR-VYNIL  373 (504)
Q Consensus       306 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~-~~~---~~~a~~~~~~~~~~~~~~~~~~-~~~~l  373 (504)
                      ..+.++...|.+.+.-+.-..  |+...-       ..+.+..+. ..+   ...=+.+|+. .....  .|.. ....|
T Consensus       308 ~Vk~~~T~~a~q~l~lL~~ld--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~-~qs~D--iDrqQLvh~L  382 (549)
T PF07079_consen  308 KVKQVQTEEAKQYLALLKILD--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEE-IQSYD--IDRQQLVHYL  382 (549)
T ss_pred             HHHHHhHHHHHHHHHHHHhcC--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHH-HHhhc--ccHHHHHHHH
Confidence            888888888888877666543  222111       122222221 111   1122233332 22221  1211 11122


Q ss_pred             HH---HHHhcCC-hHHHHHHHHHHHHhcCCCC-chhhHHHHH----HHHhh---cCcHHHHHHHHHHHHhcCcCCCcch-
Q 043204          374 LK---GLCDAGN-SAVAVMYLKKMSKQVGCVA-NGETYGILV----DGLCR---DGRFLEASRVLEEMLIRSYWPCVET-  440 (504)
Q Consensus       374 ~~---~~~~~~~-~~~a~~~~~~~~~~~~~~p-~~~~~~~l~----~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~-  440 (504)
                      +.   -+-+.|. -++|+.+++.+.+-   .| |...-|.+.    .+|..   ...+.+-.++-+-+.+.|++|-... 
T Consensus       383 ~~~Ak~lW~~g~~dekalnLLk~il~f---t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e  459 (549)
T PF07079_consen  383 VFGAKHLWEIGQCDEKALNLLKLILQF---TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISE  459 (549)
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHh---ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccH
Confidence            22   2233343 66677777776643   22 222222111    12211   1233333344334444565553322 


Q ss_pred             ---HHHHHHH--HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          441 ---YNVLIRG--LCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       441 ---~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                         -|.|.++  +..+|++.++.-.-.-+.  .+.|++.++..+.-++..... +++|..++..+
T Consensus       460 ~eian~LaDAEyLysqgey~kc~~ys~WL~--~iaPS~~~~RLlGl~l~e~k~-Y~eA~~~l~~L  521 (549)
T PF07079_consen  460 EEIANFLADAEYLYSQGEYHKCYLYSSWLT--KIAPSPQAYRLLGLCLMENKR-YQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHH--HhCCcHHHHHHHHHHHHHHhh-HHHHHHHHHhC
Confidence               2333322  335666666655544444  356666666655554444433 77777766654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=97.63  E-value=0.0017  Score=58.77  Aligned_cols=92  Identities=9%  Similarity=0.044  Sum_probs=70.2

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK  130 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  130 (504)
                      ....+...|++++|++.|++..+.. +.+...|..+..+|.+.|++++|+..++...+.+. .+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCC
Confidence            3455667788888888888888776 56667788888888888888888888888877653 345667777778888888


Q ss_pred             HHHHHHHHHHhhcC
Q 043204          131 LEAAHILFLRSCYG  144 (504)
Q Consensus       131 ~~~a~~~~~~~~~~  144 (504)
                      +++|...|++....
T Consensus        86 ~~eA~~~~~~al~l   99 (356)
T PLN03088         86 YQTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHHh
Confidence            88888888877654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.63  E-value=0.062  Score=50.82  Aligned_cols=217  Identities=10%  Similarity=0.029  Sum_probs=128.3

Q ss_pred             ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC-CCCccHHHHHHHHH-------HHHhcchH
Q 043204           60 RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF-NCVNWTQSFNTLLK-------EMVKESKL  131 (504)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~-------~~~~~~~~  131 (504)
                      ..++|.+..+    .  .|.+..|..+.......-.++.|+..|-+.... |++. +.-...+.+       .-+--|++
T Consensus       678 gledA~qfiE----d--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~-vkrl~~i~s~~~q~aei~~~~g~f  750 (1189)
T KOG2041|consen  678 GLEDAIQFIE----D--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKL-VKRLRTIHSKEQQRAEISAFYGEF  750 (1189)
T ss_pred             chHHHHHHHh----c--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhH-HHHhhhhhhHHHHhHhHhhhhcch
Confidence            4556665543    2  588889998888877777888888888776542 2221 111111111       11224899


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          132 EAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-GCYPDRESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      ++|+++|-++..+          ...+..+.+.||+-...++++.--.. .-.--...|+.+...++....|++|.+.|.
T Consensus       751 eeaek~yld~drr----------DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  751 EEAEKLYLDADRR----------DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             hHhhhhhhccchh----------hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999877544          34567778889998888877653211 001112567788888888888888888876


Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          211 SMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      .-       +   +   ....+.++.+..++++-..+-+.+      |.+......+...+.+.|.-++|.+.+-+.-. 
T Consensus       821 ~~-------~---~---~e~~~ecly~le~f~~LE~la~~L------pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-  880 (1189)
T KOG2041|consen  821 YC-------G---D---TENQIECLYRLELFGELEVLARTL------PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL-  880 (1189)
T ss_pred             hc-------c---c---hHhHHHHHHHHHhhhhHHHHHHhc------CcccchHHHHHHHHHhhchHHHHHHHHHhccC-
Confidence            44       1   1   123556666666665554444432      34444555556666666666666655433211 


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 043204          291 GGIPSLASYSAMAIDLYNEGRIVEGDKVLDE  321 (504)
Q Consensus       291 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  321 (504)
                         |     ...+..|...+++.+|.++-+.
T Consensus       881 ---p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  881 ---P-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ---c-----HHHHHHHHHHHHHHHHHHHHHh
Confidence               1     1234455566666666655543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.63  E-value=0.0025  Score=50.91  Aligned_cols=95  Identities=7%  Similarity=-0.160  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043204          117 SFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKG  195 (504)
Q Consensus       117 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  195 (504)
                      .+..+...+...|++++|...|++.....+.++ ...++..+...+...|++++|...++...... +....++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            344444444455555555555555542211111 12345555566666666666666666655432 1122334444444


Q ss_pred             HH-------hcCCHHHHHHHHHHH
Q 043204          196 LC-------NDRRLNEATHLLYSM  212 (504)
Q Consensus       196 ~~-------~~~~~~~a~~~~~~~  212 (504)
                      +.       ..|+++.|...+++.
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHHHH
Confidence            44       566666555555443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.62  E-value=0.0089  Score=47.87  Aligned_cols=90  Identities=7%  Similarity=-0.113  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD--RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      ...+..+...+...|++++|...|++..+.+..++  ...+..+...+.+.|++++|...+++.    ..... .+...+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a----l~~~p-~~~~~~  109 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQA----LELNP-KQPSAL  109 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhCc-ccHHHH
Confidence            34456666667777777777777777765432221  345666677777777777777777766    33221 134555


Q ss_pred             HHHHHHHHhcCchhHHH
Q 043204          229 RTLLFALCDQGKIQDAM  245 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~  245 (504)
                      ..+..++...|+...+.
T Consensus       110 ~~lg~~~~~~g~~~~a~  126 (172)
T PRK02603        110 NNIAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHHHcCChHhHh
Confidence            55666666666544443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.0031  Score=53.22  Aligned_cols=111  Identities=5%  Similarity=0.002  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC---ChhHHHHHH
Q 043204           27 ALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG---QLNEAVSLF  103 (504)
Q Consensus        27 A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~  103 (504)
                      ...-++.-++.+|+   |...|-.|..+|...|+...|...|.+..+.. ++++..+..+..++..+.   +..++..+|
T Consensus       141 l~a~Le~~L~~nP~---d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll  216 (287)
T COG4235         141 LIARLETHLQQNPG---DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALL  216 (287)
T ss_pred             HHHHHHHHHHhCCC---CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHH
Confidence            33334444444454   55555555555555555555555555555444 344444444444333221   233444444


Q ss_pred             HHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204          104 KNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus       104 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      +++...+ +.+..+..-|...+...|++.+|...++.|.
T Consensus       217 ~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL  254 (287)
T COG4235         217 RQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLL  254 (287)
T ss_pred             HHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            4444433 1223333333333334444444444444433

>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=97.57  E-value=0.0016  Score=52.12  Aligned_cols=89  Identities=20%  Similarity=0.150  Sum_probs=66.1

Q ss_pred             CccHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcC----------------cHHHH
Q 043204          364 VPTVRVYNILLKGLCDA-----GNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDG----------------RFLEA  422 (504)
Q Consensus       364 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g----------------~~~~A  422 (504)
                      ..+-.+|..+++.+.+.     |..+-....+..|.+- |+..|..+|+.|++.+=+..                +-+-|
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~ef-gv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~  122 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEF-GVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA  122 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHc-CCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence            56788888888888754     6666677777888776 99999999999998875421                24557


Q ss_pred             HHHHHHHHhcCcCCCcchHHHHHHHHHccCC
Q 043204          423 SRVLEEMLIRSYWPCVETYNVLIRGLCSIGK  453 (504)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  453 (504)
                      .+++++|...|+-||..++..++..+++.+.
T Consensus       123 i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  123 IDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            7777777777777777777777777755443

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.54  E-value=0.0012  Score=55.38  Aligned_cols=99  Identities=19%  Similarity=0.145  Sum_probs=71.1

Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCc
Q 043204          340 ALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGR  418 (504)
Q Consensus       340 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  418 (504)
                      -+.+.+++++|+..|.+++.-.  +.|.+.|..-..+|.+.|.++.|++-.+....   +.|. ..+|..|..+|...|+
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~--P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD--PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCc
Confidence            3567788888888888766643  45666777777788888888888877777664   3443 3577888888888888


Q ss_pred             HHHHHHHHHHHHhcCcCCCcchHHHHH
Q 043204          419 FLEASRVLEEMLIRSYWPCVETYNVLI  445 (504)
Q Consensus       419 ~~~A~~~~~~~~~~~~~~~~~~~~~l~  445 (504)
                      +++|.+.|++.++.  .|+-.+|..=+
T Consensus       165 ~~~A~~aykKaLel--dP~Ne~~K~nL  189 (304)
T KOG0553|consen  165 YEEAIEAYKKALEL--DPDNESYKSNL  189 (304)
T ss_pred             HHHHHHHHHhhhcc--CCCcHHHHHHH
Confidence            88888888877764  47766665443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.53  E-value=0.0016  Score=55.49  Aligned_cols=96  Identities=7%  Similarity=0.054  Sum_probs=60.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHHHHh
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRTYAR   92 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~   92 (504)
                      ...+.+.|++++|+..|+.+.+.+|+-.....++..+..+|...|++++|...|+.+.+...  +.....+..+..++..
T Consensus       150 ~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~  229 (263)
T PRK10803        150 IALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQD  229 (263)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHH
Confidence            33344567777777777777777765332234566666777777777777777777765431  1123344455566667


Q ss_pred             cCChhHHHHHHHHhhhCC
Q 043204           93 AGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~  110 (504)
                      .|+.+.|..+|+.+.+..
T Consensus       230 ~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        230 KGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             cCCHHHHHHHHHHHHHHC
Confidence            777777777777766553

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.53  E-value=0.0014  Score=54.91  Aligned_cols=102  Identities=11%  Similarity=0.142  Sum_probs=72.8

Q ss_pred             HHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHH
Q 043204           53 GILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLE  132 (504)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  132 (504)
                      +-+.+.+++.+|+..|.+.++.. +-|...|..-..+|.+.|.++.|++-.+..+..+. ....+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp-~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP-HYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHccCcHH
Confidence            44556778888888888888776 66667777778888888888888887777776663 33567888888888888888


Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHH
Q 043204          133 AAHILFLRSCYGWEVKSRIQSLNLLMD  159 (504)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~~l~~  159 (504)
                      +|++.|++..+   +.|+-.+|-.=+.
T Consensus       167 ~A~~aykKaLe---ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  167 EAIEAYKKALE---LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHhhhc---cCCCcHHHHHHHH
Confidence            88888877764   3444444444333

>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=97.51  E-value=0.00032  Score=45.97  Aligned_cols=64  Identities=28%  Similarity=0.307  Sum_probs=40.6

Q ss_pred             hhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 043204          414 CRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLV  480 (504)
Q Consensus       414 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll  480 (504)
                      .+.|++++|.++|+++.+.. +-+...+..+..+|.+.|++++|.++++++...  .|+...+..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            35677777777777776653 235555666777777777777777777777743  46655555544

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.47  E-value=0.011  Score=48.74  Aligned_cols=129  Identities=12%  Similarity=-0.010  Sum_probs=63.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCC----CcchHHHHHHHH
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWE----VKSRIQSLNLLM  158 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~  158 (504)
                      .+.+++.+.-.|.+.-...++++.++.+.+.++.....|.+.-.+.|+.+.|...|++..+..+    ..-+..+.....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            4445555555555555555566555555555555555555555555666666666654432211    111111122222


Q ss_pred             HHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          159 DVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       159 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ..|.-.+++..|...|+++...+.. |+...|.=.-+..-.|+..+|.+.++.|
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~  312 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAM  312 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555666666666666554321 3333333333334455666666666666

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=0.0027  Score=53.58  Aligned_cols=103  Identities=11%  Similarity=0.026  Sum_probs=88.6

Q ss_pred             CCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhcc---CChhHHHHHHHHhhcCCCCccHHH
Q 043204            6 PRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSES---NRITEMKEVIDQMKGDSCECKDSV   82 (504)
Q Consensus         6 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~   82 (504)
                      -|...|-.|..+|...|+.+.|...|.+..+..|+   |...+..+..++..+   ....++..+|+++.+.+ +-|..+
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~---n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~ira  229 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD---NPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRA  229 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHH
Confidence            46778999999999999999999999999999776   777777777666544   34568999999999988 778888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCCC
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNCV  112 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (504)
                      ...|...+...|++.+|...|+.|.+....
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            888999999999999999999999987644

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.43  E-value=0.12  Score=49.40  Aligned_cols=114  Identities=16%  Similarity=0.133  Sum_probs=77.2

Q ss_pred             cchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHH
Q 043204          329 PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGI  408 (504)
Q Consensus       329 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~  408 (504)
                      ....+.+--+.-+...|+-.+|.++-.+ .+    -||-..|-.=+.+++..+++++-+++-+..       ..+.-|..
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~-Fk----ipdKr~~wLk~~aLa~~~kweeLekfAksk-------ksPIGy~P  749 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSD-FK----IPDKRLWWLKLTALADIKKWEELEKFAKSK-------KSPIGYLP  749 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHh-cC----CcchhhHHHHHHHHHhhhhHHHHHHHHhcc-------CCCCCchh
Confidence            3445556666667777888888776554 32    467777777777888888887766544432       23566777


Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHH
Q 043204          409 LVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEE  463 (504)
Q Consensus       409 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  463 (504)
                      .+.+|.+.|+.++|.+++-+....   +      -.+.+|.+.|++.+|.+.--+
T Consensus       750 FVe~c~~~~n~~EA~KYiprv~~l---~------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  750 FVEACLKQGNKDEAKKYIPRVGGL---Q------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHHhcccHHHHhhhhhccCCh---H------HHHHHHHHhccHHHHHHHHHH
Confidence            888888888888888888776542   1      345677777777777765433

>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=97.42  E-value=0.0002  Score=47.13  Aligned_cols=60  Identities=23%  Similarity=0.142  Sum_probs=32.8

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC-ChhHHHHHHHHhhc
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN-RITEMKEVIDQMKG   73 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~   73 (504)
                      |..+...+...|++++|+..|+++.+.+|.   +...|..+..++...| ++++|.+.+++..+
T Consensus         6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~---~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    6 WYNLGQIYFQQGDYEEAIEYFEKAIELDPN---NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHHHHHSTT---HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            444555555555555555555555555544   4555555555555555 45555555555443

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.42  E-value=0.00075  Score=43.69  Aligned_cols=58  Identities=12%  Similarity=0.168  Sum_probs=39.5

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      +...+.+.|++++|.+.|+.+.+.. +-+...+..+..++...|++++|...|+.+.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3456667777777777777777766 556666777777777777777777777776554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.41  E-value=0.0048  Score=45.26  Aligned_cols=88  Identities=9%  Similarity=0.064  Sum_probs=43.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcc--hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCc---cHHHHHHHHHHH
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHN--GPVYASMIGILSESNRITEMKEVIDQMKGDSCEC---KDSVFATAIRTY   90 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~   90 (504)
                      .++-..|+.++|+.+|++....  |....  ...+-.+.+.+...|++++|..+|+...... +.   +......+..++
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~--gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAA--GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHc--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHH
Confidence            4445566666666666666654  22211  2234445555556666666666666555432 11   112222223344


Q ss_pred             HhcCChhHHHHHHHHh
Q 043204           91 ARAGQLNEAVSLFKNL  106 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~  106 (504)
                      ...|+.++|++.+-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            4556666665555443

>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=97.41  E-value=0.0014  Score=52.44  Aligned_cols=103  Identities=19%  Similarity=0.219  Sum_probs=68.0

Q ss_pred             CChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH
Q 043204          294 PSLASYSAMAIDLYNE-----GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR  368 (504)
Q Consensus       294 ~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  368 (504)
                      .+..+|..++..+.+.     |..+-....+..|.+.|+.-|..+|+.|++.+-+ |.+- -..+|+.+..         
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~---------  113 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFM---------  113 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhc---------
Confidence            4778888888888765     7788888889999999999999999999988765 3221 1112221000         


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcC
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDG  417 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  417 (504)
                               -.-.+-+-|++++++|... |+-||..++..+++.+.+.+
T Consensus       114 ---------hyp~Qq~c~i~lL~qME~~-gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 ---------HYPRQQECAIDLLEQMENN-GVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             ---------cCcHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHhcccc
Confidence                     0112234466667777665 77777777777776665544

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

>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=97.40  E-value=0.00051  Score=45.15  Aligned_cols=64  Identities=14%  Similarity=0.168  Sum_probs=41.4

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC-ChhHHHHHHHHhhh
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG-QLNEAVSLFKNLSQ  108 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  108 (504)
                      ++.+|..+...+...|++++|+..|++..+.+ +.+...|..+..++...| ++++|++.++...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34556666666666777777777776666665 455566666666666666 56666666666554

...

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.39  E-value=0.058  Score=44.75  Aligned_cols=176  Identities=10%  Similarity=-0.025  Sum_probs=100.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh---
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR---   92 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---   92 (504)
                      ..-.+.|++++|.+.|+.+..++|.-.-...+...++.++-+.++++.|+..+++..+.....+...|..-|.+++.   
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~  121 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQ  121 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcc
Confidence            33456789999999999999888876666667777788888899999999999888876533333345555555443   


Q ss_pred             ----cCChhHHHHHHHHh---hhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           93 ----AGQLNEAVSLFKNL---SQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        93 ----~~~~~~a~~~~~~~---~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                          .+|...+.+.|..+   .+.-  |+             +.=...|......+....     ...=-.+.+.|.+.|
T Consensus       122 i~~~~rDq~~~~~A~~~f~~~i~ry--Pn-------------S~Ya~dA~~~i~~~~d~L-----A~~Em~IaryY~kr~  181 (254)
T COG4105         122 IDDVTRDQSAARAAFAAFKELVQRY--PN-------------SRYAPDAKARIVKLNDAL-----AGHEMAIARYYLKRG  181 (254)
T ss_pred             CCccccCHHHHHHHHHHHHHHHHHC--CC-------------CcchhhHHHHHHHHHHHH-----HHHHHHHHHHHHHhc
Confidence                22333333333333   2221  11             000111111111111000     000033556777778


Q ss_pred             CHHHHHHHHHHhhhCCCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          166 RSDLALHVFQEMDFQGCYPDR---ESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      .+..|..-+++|.+. .+-+.   ..+-.+..+|...|-.++|...-.-+
T Consensus       182 ~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         182 AYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             ChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            888887777777776 22122   33445556777777777776664443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.38  E-value=0.012  Score=43.15  Aligned_cols=53  Identities=13%  Similarity=0.124  Sum_probs=21.2

Q ss_pred             HhccCChhHHHHHHHHhhcCCCCcc--HHHHHHHHHHHHhcCChhHHHHHHHHhh
Q 043204           55 LSESNRITEMKEVIDQMKGDSCECK--DSVFATAIRTYARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (504)
                      +-..|+.++|+.+|++....|....  ...+..+...+...|++++|+.+|+...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3334444444444444444432221  1123333344444444444444444433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.36  E-value=0.0011  Score=44.13  Aligned_cols=58  Identities=22%  Similarity=0.206  Sum_probs=45.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      -.+|.+.+++++|+++++.+...+|+   +...|.....++.+.|++++|.+.|+...+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPD---DPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcc---cchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            35677788888888888888887776   77777777788888888888888888887765

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.35  E-value=0.0042  Score=54.44  Aligned_cols=138  Identities=12%  Similarity=-0.071  Sum_probs=71.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhh
Q 043204          188 SYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRI  266 (504)
Q Consensus       188 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  266 (504)
                      .|..|-+.|.-.|+++.|....+.-+...++.|-.. ....+..+..+++-.|+++.|.+.|+.....-+...+      
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~------  270 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGN------  270 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcc------
Confidence            344444445555666666665544332223333221 1234555666666667777776666654332111000      


Q ss_pred             hccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH----CC-CCcchhhHHHHHHHH
Q 043204          267 DLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT----KG-FWPSLVMYEAKLAAL  341 (504)
Q Consensus       267 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~  341 (504)
                                               ........-++..+|.-..++++|+.++.+-..    .+ ..-....+-+|..+|
T Consensus       271 -------------------------r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~  325 (639)
T KOG1130|consen  271 -------------------------RTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAF  325 (639)
T ss_pred             -------------------------hhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence                                     011233444555666666667777766543321    10 111445667777777


Q ss_pred             hcCCCHHHHHHHHHH
Q 043204          342 FKDGMVDEALEVIEE  356 (504)
Q Consensus       342 ~~~~~~~~a~~~~~~  356 (504)
                      ...|..++|+...+.
T Consensus       326 ~alg~h~kAl~fae~  340 (639)
T KOG1130|consen  326 NALGEHRKALYFAEL  340 (639)
T ss_pred             HhhhhHHHHHHHHHH
Confidence            777777777766554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.34  E-value=0.094  Score=46.10  Aligned_cols=309  Identities=15%  Similarity=0.073  Sum_probs=147.3

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHh--ccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH--HHhcCChhH
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILS--ESNRITEMKEVIDQMKGDSCECKDSVFATAIRT--YARAGQLNE   98 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~   98 (504)
                      .+..+.+.|..-.+..        -|.+|-..+.  -.|+-..|.++-.+..+.- ..|......++.+  -.-.|+++.
T Consensus        68 sP~t~~Ryfr~rKRdr--------gyqALStGliAagAGda~lARkmt~~~~~ll-ssDqepLIhlLeAQaal~eG~~~~  138 (531)
T COG3898          68 SPYTARRYFRERKRDR--------GYQALSTGLIAAGAGDASLARKMTARASKLL-SSDQEPLIHLLEAQAALLEGDYED  138 (531)
T ss_pred             CcHHHHHHHHHHHhhh--------HHHHHhhhhhhhccCchHHHHHHHHHHHhhh-hccchHHHHHHHHHHHHhcCchHH
Confidence            3445555555544321        2444443333  3456666666554443211 2333334344332  233577777


Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204           99 AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      |.+-|+.|.... ....--+..|.-.-.+.|+.+.|..+-++.-.....  -...+...+...+..|+++.|+++++.-.
T Consensus       139 Ar~kfeAMl~dP-EtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~--l~WA~~AtLe~r~~~gdWd~AlkLvd~~~  215 (531)
T COG3898         139 ARKKFEAMLDDP-ETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ--LPWAARATLEARCAAGDWDGALKLVDAQR  215 (531)
T ss_pred             HHHHHHHHhcCh-HHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC--CchHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            777777765421 111111222333334556666666666655433222  12455666667777777777777776554


Q ss_pred             hC-CCCCCHh--hHHHHHHHHH---hcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH-HHHHHHHHhcCchhHHHHHHHHH
Q 043204          179 FQ-GCYPDRE--SYHILMKGLC---NDRRLNEATHLLYSMFWRISQKGSGEDIVIY-RTLLFALCDQGKIQDAMQILEKI  251 (504)
Q Consensus       179 ~~-~~~p~~~--~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~  251 (504)
                      .. -+.++..  .-..|+.+-.   -..+...|...-.+.      ..+.||..-- ..-..++.+.|+..++-.+++.+
T Consensus       216 ~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a------~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~a  289 (531)
T COG3898         216 AAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEA------NKLAPDLVPAAVVAARALFRDGNLRKGSKILETA  289 (531)
T ss_pred             HHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHH------hhcCCccchHHHHHHHHHHhccchhhhhhHHHHH
Confidence            43 2233332  1222222211   122344444433322      2234442221 22335566677777777777777


Q ss_pred             HHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCc
Q 043204          252 LRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR-GGIP-SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWP  329 (504)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  329 (504)
                      -+....|.....+.     ..+.|+.  +..-+++.... ..+| +......+..+....|++..|..--+.....  .|
T Consensus       290 WK~ePHP~ia~lY~-----~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~p  360 (531)
T COG3898         290 WKAEPHPDIALLYV-----RARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--AP  360 (531)
T ss_pred             HhcCCChHHHHHHH-----HhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--Cc
Confidence            66544433222221     2233332  22222222111 1122 3444555556666667777777666655553  45


Q ss_pred             chhhHHHHHHHHh-cCCCHHHHHHHHHHHH
Q 043204          330 SLVMYEAKLAALF-KDGMVDEALEVIEEEM  358 (504)
Q Consensus       330 ~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~  358 (504)
                      ....|..|.+.-. ..|+-.++...+-+..
T Consensus       361 res~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         361 RESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             hhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence            6666666666543 4578788777777633

>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=97.28  E-value=0.0036  Score=48.56  Aligned_cols=88  Identities=15%  Similarity=0.266  Sum_probs=47.6

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCC-CCcchh------------------cHHHHHHHHhccCChhHHHHHHHHhhcCCCCc
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPN-YRHNGP------------------VYASMIGILSESNRITEMKEVIDQMKGDSCEC   78 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~------------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   78 (504)
                      ....++++.+...++++...+.| +-++..                  +...++..+...|++++|..+++.+.... |.
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~   94 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALD-PY   94 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CC
Confidence            45678999999999999988543 111211                  12233333445556666666666655555 45


Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           79 KDSVFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      +...|..+|.+|...|+...|.++|+.+
T Consensus        95 ~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   95 DEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            5555666666666666666666665554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.27  E-value=0.12  Score=45.75  Aligned_cols=141  Identities=17%  Similarity=0.188  Sum_probs=100.4

Q ss_pred             hhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHH
Q 043204          331 LVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILV  410 (504)
Q Consensus       331 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  410 (504)
                      ..+.+..+.-+...|+...|.++-.+ ..    -|+...|..-+.+++..+++++-.++-..       +-++..|..++
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~-Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv  244 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKE-FK----VPDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFV  244 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHH-cC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHH
Confidence            34556667777888998888887655 32    47888999999999999999987765432       23568899999


Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCch
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADL  490 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~  490 (504)
                      .+|.+.|+..+|..++.++          .+..-+..|.+.|++.+|.+.--+..      |...+..+... |..+. .
T Consensus       245 ~~~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~-~~~~~-~  306 (319)
T PF04840_consen  245 EACLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKR-CPGNN-D  306 (319)
T ss_pred             HHHHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHH-CCCCC-h
Confidence            9999999999999998772          23567788899999999988765553      55555555553 33333 2


Q ss_pred             hHHHHHHHHhh
Q 043204          491 NVCRKTLEQLS  501 (504)
Q Consensus       491 ~~a~~~~~~~~  501 (504)
                      ..-....+.|.
T Consensus       307 ~~~~~~i~~~~  317 (319)
T PF04840_consen  307 QLIADKIEQML  317 (319)
T ss_pred             HHHHHHHHHHH
Confidence            22324445544

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

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.26  E-value=0.0055  Score=53.73  Aligned_cols=135  Identities=12%  Similarity=-0.040  Sum_probs=80.7

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHH----HCCCC-cchhhHHHHHHHHhcCCCHHHHHHHHHHHH----hcCCCCccH
Q 043204          297 ASYSAMAIDLYNEGRIVEGDKVLDEMR----TKGFW-PSLVMYEAKLAALFKDGMVDEALEVIEEEM----VKGTFVPTV  367 (504)
Q Consensus       297 ~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~  367 (504)
                      ..|..+...|+-.|+++.|+...+.-.    +.|-. .....+..+.+++.-.|+++.|.+.|+..+    +-..-....
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            345555566666678888776554322    22211 123456677777888888888888777522    111122334


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHh----cCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          368 RVYNILLKGLCDAGNSAVAVMYLKKMSKQ----VGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      .+.-+|.+.|.-..++++|+.++.+-..-    ....-....+-+|..+|...|..++|+.+.+.-.+
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            45566777777777788888777664321    01112344566777888888888888777665543

>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=97.21  E-value=0.019  Score=44.53  Aligned_cols=72  Identities=25%  Similarity=0.290  Sum_probs=54.0

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH-----HcCCCCCHHHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI-----SQAKLPDISVWS  477 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~~  477 (504)
                      +...++..+...|++++|.++.+.+.... +.+...|..++.+|...|+..+|.++|+++.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            44567777888999999999999999875 5567889999999999999999999998875     458888886644

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.16  E-value=0.077  Score=41.41  Aligned_cols=133  Identities=16%  Similarity=0.120  Sum_probs=80.3

Q ss_pred             cchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHH
Q 043204          329 PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGI  408 (504)
Q Consensus       329 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~  408 (504)
                      |+...--.|..+....|+..+|...|++ -....+--|......+.++....+++..|...++.+.+...-.-++.+.-.
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~q-alsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQ-ALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHH-HhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            4555555666777777777777777776 444445556666666777777777777777777776654211112334455


Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHH
Q 043204          409 LVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEM  464 (504)
Q Consensus       409 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  464 (504)
                      +.+.+...|...+|..-|+...+.-  |+...-......+.+.|+.+++..-+...
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            6667777777777777777777642  44444334444556666555554443333

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.14  E-value=0.0071  Score=44.85  Aligned_cols=54  Identities=15%  Similarity=0.166  Sum_probs=38.1

Q ss_pred             cCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHH
Q 043204          360 KGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGL  413 (504)
Q Consensus       360 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  413 (504)
                      ..+..|+..+..+++.+|+..+++..|+++++...+.++++-+..+|..|+.-+
T Consensus        45 ~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   45 SSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            344567777777777777777777777777777777777666667777666443

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.12  E-value=0.21  Score=47.10  Aligned_cols=86  Identities=17%  Similarity=0.136  Sum_probs=51.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH---------
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR---------  368 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---------  368 (504)
                      +...+..-+.+...+.-|-++|..|-+.         ..+++.....+++++|..+-++ ..+  ..||..         
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~-hPe--~~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEK-HPE--FKDDVYMPYAQWLAE  816 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhh-Ccc--ccccccchHHHHhhh
Confidence            3333333333446677778888777543         3566777888888888877665 322  234432         


Q ss_pred             --HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          369 --VYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       369 --~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                        -|...-.+|.++|+-.+|.++++++..
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence              122333456677777777777777654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.12  E-value=0.12  Score=42.73  Aligned_cols=23  Identities=9%  Similarity=0.118  Sum_probs=10.7

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhc
Q 043204          410 VDGLCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       410 ~~~~~~~g~~~~A~~~~~~~~~~  432 (504)
                      .+.|.+.|.+..|..-++.+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH
Confidence            34444555555555555555443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.11  E-value=0.0036  Score=41.58  Aligned_cols=65  Identities=25%  Similarity=0.133  Sum_probs=45.3

Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 043204          411 DGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSS  478 (504)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  478 (504)
                      ..|.+.+++++|.++++.+...+ +.+...|.....++.+.|++++|.+.|++..+.  .|+......
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~~~~   67 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPDARA   67 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHHHHH
Confidence            45677788888888888887764 345666666777777888888888888888754  455544433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.08  E-value=0.18  Score=44.37  Aligned_cols=297  Identities=18%  Similarity=0.144  Sum_probs=169.7

Q ss_pred             HHHHHHHHHh--cchHHHHHHHHHHhhcCCCCcchHHHHHHHHH--HHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043204          118 FNTLLKEMVK--ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMD--VLCQCRRSDLALHVFQEMDFQGCYPDRESYHILM  193 (504)
Q Consensus       118 ~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  193 (504)
                      |.+|-.++..  .|+-..|.++-.+....  +..|....-.|+.  +-.-.|+++.|.+-|+.|..     |+.|-..=+
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGL  157 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGL  157 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhH
Confidence            3444444443  46777777776655421  1222222222332  23346999999999999986     333333323


Q ss_pred             HH----HHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhc
Q 043204          194 KG----LCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDL  268 (504)
Q Consensus       194 ~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  268 (504)
                      ++    .-+.|+.+.|.++-+...    .  ..| -...+..++...+..|+|+.|+++++.-....+...+..-     
T Consensus       158 RgLyleAqr~GareaAr~yAe~Aa----~--~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~ae-----  226 (531)
T COG3898         158 RGLYLEAQRLGAREAARHYAERAA----E--KAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAE-----  226 (531)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHH----h--hccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHH-----
Confidence            32    346788888888877662    2  222 2467788899999999999999999887665432111100     


Q ss_pred             cccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc---CChhHHHHHHHHHHHCCCCcchhhH-HHHHHHHhcC
Q 043204          269 CPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE---GRIVEGDKVLDEMRTKGFWPSLVMY-EAKLAALFKD  344 (504)
Q Consensus       269 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~  344 (504)
                                                  ..-..++.+-...   -+...|...-.+..+  +.||..-- ..-..++.+.
T Consensus       227 ----------------------------R~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d  276 (531)
T COG3898         227 ----------------------------RSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRD  276 (531)
T ss_pred             ----------------------------HHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhc
Confidence                                        0111111111111   334444444444433  33443322 2234567888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCch-hhHHHHHHHHhhcCcHHHHH
Q 043204          345 GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANG-ETYGILVDGLCRDGRFLEAS  423 (504)
Q Consensus       345 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~  423 (504)
                      |+..++-.+++. +-+.  .|...++.    .|.+...-+.+..-+++..+...++||. ...-.+..+-...|++..|.
T Consensus       277 ~~~rKg~~ilE~-aWK~--ePHP~ia~----lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~AR  349 (531)
T COG3898         277 GNLRKGSKILET-AWKA--EPHPDIAL----LYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAAR  349 (531)
T ss_pred             cchhhhhhHHHH-HHhc--CCChHHHH----HHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHH
Confidence            888888888887 4444  34443332    2333333344444455554443556653 45555667777788888777


Q ss_pred             HHHHHHHhcCcCCCcchHHHHHHHH-HccCCHHHHHHHHHHHHHcCCCC
Q 043204          424 RVLEEMLIRSYWPCVETYNVLIRGL-CSIGKQYEAVMWLEEMISQAKLP  471 (504)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~p  471 (504)
                      .--+.....  .|....|..|.+.- ...|+-.++...+-+..+..-.|
T Consensus       350 a~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         350 AKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            766665543  47777777777654 34588888888888887654333

>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=97.02  E-value=0.006  Score=41.18  Aligned_cols=67  Identities=19%  Similarity=0.166  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC-cC-HHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          187 ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG-ED-IVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       187 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      .+|+.+...|...|++++|+..|++........|.. |+ ..++..+..+|...|++++|++.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456666667777777777777777765443333322 22 45677777778888888888887777654

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.99  E-value=0.018  Score=49.29  Aligned_cols=95  Identities=9%  Similarity=0.013  Sum_probs=41.1

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC--CCCHhhHHHHHH
Q 043204          118 FNTLLKEMVKESKLEAAHILFLRSCYGWEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC--YPDRESYHILMK  194 (504)
Q Consensus       118 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~  194 (504)
                      |...+..+.+.|++++|...|+.+....+-.+ ....+..+...|...|++++|...|+.+.+.-.  ......+..+..
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            33333333444555555555555543321110 012233344555555555555555555544310  011222333334


Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 043204          195 GLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       195 ~~~~~~~~~~a~~~~~~~  212 (504)
                      .+...|+.++|..+|+.+
T Consensus       226 ~~~~~g~~~~A~~~~~~v  243 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQV  243 (263)
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            444555555555555555

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.94  E-value=0.07  Score=50.31  Aligned_cols=165  Identities=12%  Similarity=0.024  Sum_probs=109.1

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH-----HHHHHHHHHHh----cCChHHHHHHHHHHHHhcCCCCch
Q 043204          333 MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR-----VYNILLKGLCD----AGNSAVAVMYLKKMSKQVGCVANG  403 (504)
Q Consensus       333 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~  403 (504)
                      .+..++....-.|+-+.+++.+.+.....++.-...     .|..++..++.    ..+.+.|.++++.+.+.   -|+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCc
Confidence            345667777778888888888887555554443222     23333333332    45678899999998865   4666


Q ss_pred             hhHHHH-HHHHhhcCcHHHHHHHHHHHHhcC---cCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 043204          404 ETYGIL-VDGLCRDGRFLEASRVLEEMLIRS---YWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSL  479 (504)
Q Consensus       404 ~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  479 (504)
                      ..|... .+.+...|++++|.+.|++.....   .+.....+.-+...+.-.++|++|.+.|.++.+.. .-+..+|.-+
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~  345 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYL  345 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHH
Confidence            555433 356777899999999999766421   12234555667777888999999999999998753 3455666666


Q ss_pred             HHHHhcCCCch-------hHHHHHHHHhh
Q 043204          480 VASVCCNTADL-------NVCRKTLEQLS  501 (504)
Q Consensus       480 l~~~~~~~~~~-------~~a~~~~~~~~  501 (504)
                      ..++.-..++.       ++|.++++++.
T Consensus       346 ~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  346 AAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            66655555556       77777777654

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.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.91  E-value=0.27  Score=43.52  Aligned_cols=109  Identities=19%  Similarity=0.130  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 043204          227 IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDL  306 (504)
Q Consensus       227 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  306 (504)
                      +.+..+.-+...|+...|.++-.+.     .                                   .|+...|...+.++
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F-----k-----------------------------------v~dkrfw~lki~aL  218 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF-----K-----------------------------------VPDKRFWWLKIKAL  218 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc-----C-----------------------------------CcHHHHHHHHHHHH
Confidence            4555667777888888777776554     1                                   15777777788888


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHH
Q 043204          307 YNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVA  386 (504)
Q Consensus       307 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  386 (504)
                      +..++|++...+...   .   -++..|..++.+|.+.|+..+|..++..      ++     +..-+..|.++|++.+|
T Consensus       219 a~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~~~~~eA~~yI~k------~~-----~~~rv~~y~~~~~~~~A  281 (319)
T PF04840_consen  219 AENKDWDELEKFAKS---K---KSPIGYEPFVEACLKYGNKKEASKYIPK------IP-----DEERVEMYLKCGDYKEA  281 (319)
T ss_pred             HhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHCCCHHHHHHHHHh------CC-----hHHHHHHHHHCCCHHHH
Confidence            888888776665432   1   2457788888888888888888777664      11     13445667788888877


Q ss_pred             HHHHHH
Q 043204          387 VMYLKK  392 (504)
Q Consensus       387 ~~~~~~  392 (504)
                      .+.--+
T Consensus       282 ~~~A~~  287 (319)
T PF04840_consen  282 AQEAFK  287 (319)
T ss_pred             HHHHHH
Confidence            665444

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

>PRK15331 chaperone protein SicA; Provisional

Probab=96.91  E-value=0.0091  Score=45.80  Aligned_cols=93  Identities=10%  Similarity=-0.110  Sum_probs=65.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES  129 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  129 (504)
                      ....-+-..|++++|..+|+-+...+ +-+..-|..|..++-..+++++|+..|......+. .|...+-.....+...|
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            44455567788888888888877766 55566677777777778888888888886544332 22233356777788888


Q ss_pred             hHHHHHHHHHHhhcC
Q 043204          130 KLEAAHILFLRSCYG  144 (504)
Q Consensus       130 ~~~~a~~~~~~~~~~  144 (504)
                      +.+.|...|+.....
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            888888888887764

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.12  Score=43.86  Aligned_cols=148  Identities=14%  Similarity=0.078  Sum_probs=87.9

Q ss_pred             HHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHH
Q 043204           53 GILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLE  132 (504)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  132 (504)
                      ......|++.+|..+|....... +-+...-..++.+|...|+.+.|..++..+....-.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            44567777777887777777665 44456666777777788888888888877664432222222223344455554444


Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC--CCCCCHhhHHHHHHHHHhcCCHHHH
Q 043204          133 AAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ--GCYPDRESYHILMKGLCNDRRLNEA  205 (504)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a  205 (504)
                      +...+-.+.-..   +-|...-..+...+...|+.+.|.+.+-.+...  |.. |...-..++..+.-.|.-+.+
T Consensus       221 ~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         221 EIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             CHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCHH
Confidence            444444444332   124445566777777888888888766655543  332 555666677766666643333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.85  E-value=0.21  Score=41.46  Aligned_cols=130  Identities=13%  Similarity=-0.027  Sum_probs=61.3

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHH-----HHH
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNT-----LLK  123 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----ll~  123 (504)
                      +.+++.+.-.+.+.-...++.++.+...+.++.....+.+.-.+.||.+.|...|+...+..-..+..+++.     ...
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            444455555555555555555555554444555555555555556666666666655443322222222222     222


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      .|.-.+++..|...|.++....+-  +...-|.-.-+..-.|+...|++.++.|.+.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~--~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPR--NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccCCC--chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            333445555555555555443222  2222233222333345555566665555554

>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=96.84  E-value=0.019  Score=42.66  Aligned_cols=54  Identities=9%  Similarity=-0.059  Sum_probs=34.0

Q ss_pred             CCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHHH
Q 043204          144 GWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-GCYPDRESYHILMKGLC  197 (504)
Q Consensus       144 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~  197 (504)
                      ..+..|+..+..+++.+|+..|++..|.++.+...+. +++.+..+|..|+.-+.
T Consensus        45 ~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   45 SSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            3455666666666677776667777777766666543 55555666666666443

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.82  E-value=0.079  Score=49.69  Aligned_cols=89  Identities=20%  Similarity=0.105  Sum_probs=61.1

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcc------
Q 043204          366 TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVE------  439 (504)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------  439 (504)
                      +..+...+...+.+...+..|-++|.+|-..          ..++......+++.+|..+-++..+.  .|+..      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~----------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqw  813 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL----------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQW  813 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH----------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHH
Confidence            4445555555555667777788888877532          45677788888888888888776653  34432      


Q ss_pred             -----hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          440 -----TYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       440 -----~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                           -|...-.+|.++|+..+|.++++++..
T Consensus       814 LAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  814 LAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                 233445678889999999999998864

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=96.81  E-value=0.61  Score=46.12  Aligned_cols=162  Identities=15%  Similarity=0.099  Sum_probs=76.4

Q ss_pred             HHHHHHH-hcCChhHHHHHHHHHHhcCCCCCcchh-----cHHHHHHHHhccCChhHHHHHHHHhhcCC----CCccHHH
Q 043204           13 YLSQIIK-KQKSPLTALKIFKEAKEKYPNYRHNGP-----VYASMIGILSESNRITEMKEVIDQMKGDS----CECKDSV   82 (504)
Q Consensus        13 ~l~~~~~-~~~~~~~A~~~~~~~~~~~p~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~   82 (504)
                      .+...|. ...+++.|...+++....-.  +++..     .-..++..+.+.+... |...+++..+.-    ..+....
T Consensus        64 ~la~iL~~eT~n~~~Ae~~L~k~~~l~~--~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~  140 (608)
T PF10345_consen   64 RLASILLEETENLDLAETYLEKAILLCE--RHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYA  140 (608)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcc--ccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHH
Confidence            3444444 46677777777776654421  11211     1223344554444433 776666655422    1223333


Q ss_pred             HHHH-HHHHHhcCChhHHHHHHHHhhhCC---CCccHHHHHHHHHHHHh--cchHHHHHHHHHHhhc--------CCCCc
Q 043204           83 FATA-IRTYARAGQLNEAVSLFKNLSQFN---CVNWTQSFNTLLKEMVK--ESKLEAAHILFLRSCY--------GWEVK  148 (504)
Q Consensus        83 ~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~--------~~~~~  148 (504)
                      |..+ +..+...+++..|.+.++.+....   ..|...++..++.+...  .+..+.+.+.++++..        .....
T Consensus       141 frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~  220 (608)
T PF10345_consen  141 FRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHI  220 (608)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCc
Confidence            4433 333333367777777777665422   23334444445444442  2334444444444311        00123


Q ss_pred             chHHHHHHHHHHH--hhcCCHHHHHHHHHHh
Q 043204          149 SRIQSLNLLMDVL--CQCRRSDLALHVFQEM  177 (504)
Q Consensus       149 ~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~  177 (504)
                      |-..+|..+++.+  ...|+++.+...++++
T Consensus       221 ~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  221 PQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4455666665543  3456655555544433

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.80  E-value=0.029  Score=42.08  Aligned_cols=79  Identities=11%  Similarity=0.020  Sum_probs=61.7

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      ....+.|++++|.+.|+.+..++|.-.-...+...++.++.+.+++++|...+++.++........-|...+.+++...
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            4556788999999999999999987666777888889999999999999999999998873333344666666665543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.35  Score=43.06  Aligned_cols=51  Identities=8%  Similarity=0.032  Sum_probs=26.0

Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLR  140 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  140 (504)
                      .+.+..++..|+..+...++..+.. +.-|..-...+...+++++|..-.+.
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~pd~-a~yy~nRAa~~m~~~~~~~a~~dar~  108 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMCPDN-ASYYSNRAATLMMLGRFEEALGDARQ  108 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhCccc-hhhhchhHHHHHHHHhHhhcccchhh
Confidence            3444555666666666655554322 44444444455555555555544433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.70  E-value=0.64  Score=44.85  Aligned_cols=108  Identities=9%  Similarity=0.043  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHH
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGL  448 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  448 (504)
                      +.+--+.-+...|+..+|.++-.+.+     -||...|-.=+.+++..+++++-+++-+..+      ++.-|...+.+|
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            44445556678888889888776653     4788888888889999999888666554332      377788899999


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHH
Q 043204          449 CSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTL  497 (504)
Q Consensus       449 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~  497 (504)
                      .+.|+.++|.+++-+..  |. +      ....+|.+.|+ +.+|.+..
T Consensus       755 ~~~~n~~EA~KYiprv~--~l-~------ekv~ay~~~~~-~~eAad~A  793 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVG--GL-Q------EKVKAYLRVGD-VKEAADLA  793 (829)
T ss_pred             HhcccHHHHhhhhhccC--Ch-H------HHHHHHHHhcc-HHHHHHHH
Confidence            99999999999998874  22 1      34555566666 66665544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.69  E-value=0.051  Score=39.52  Aligned_cols=92  Identities=15%  Similarity=0.124  Sum_probs=61.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHH---HHHHHHHHHHh
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDS---VFATAIRTYAR   92 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~   92 (504)
                      -+++..|+++.|++.|.+.+..-|.   +..+||.-..++.-+|+.++|++-+++..+..-.....   .|..-...|..
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~---raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl  127 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPE---RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRL  127 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhccc---chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHH
Confidence            3456677888888888877777665   67778877777777788888877777776543122221   23334445666


Q ss_pred             cCChhHHHHHHHHhhhCC
Q 043204           93 AGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~  110 (504)
                      .|+.+.|..-|+...+.|
T Consensus       128 ~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQLG  145 (175)
T ss_pred             hCchHHHHHhHHHHHHhC
Confidence            777777777777666655

>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=96.66  E-value=0.4  Score=41.91  Aligned_cols=88  Identities=16%  Similarity=0.121  Sum_probs=46.6

Q ss_pred             CHHHHHHHHHHHHHHHhh----CCCCcC-----HHHHHHHHHHHHhcCchh---HHHHHHHHHHHcCCCCCcchhhhhhc
Q 043204          201 RLNEATHLLYSMFWRISQ----KGSGED-----IVIYRTLLFALCDQGKIQ---DAMQILEKILRKGLKAPKSRRHRIDL  268 (504)
Q Consensus       201 ~~~~a~~~~~~~~~~~~~----~~~~~~-----~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~~~~  268 (504)
                      +++.|..++++.++-+..    ....|+     ..++..++.+|...+..+   +|..+++.+....  |+....+.+-+
T Consensus        51 ~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l  128 (278)
T PF08631_consen   51 KYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKL  128 (278)
T ss_pred             ChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHH
Confidence            777777777776554322    122233     245667777887777644   4555666664432  22233333333


Q ss_pred             cccCCCCChHHHHHHHHHHHHc
Q 043204          269 CPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       269 ~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      .++.+.++.+.+.+.+.+|+..
T Consensus       129 ~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen  129 EILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHhccCChhHHHHHHHHHHHh
Confidence            3444455555555555555544

It is also involved in sporulation [].

>PRK15331 chaperone protein SicA; Provisional

Probab=96.65  E-value=0.09  Score=40.52  Aligned_cols=88  Identities=16%  Similarity=0.168  Sum_probs=52.2

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      +-..|++++|..+|.-+.-.++.. ..-+..|...+...+++++|...|.....-..-.|.  ..--...+|...|+.+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~n-~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~--p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFYN-PDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYR--PVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCC--ccchHHHHHHHhCCHHH
Confidence            345677777777777666554332 334456666666677777777777654322111122  22335566777777777


Q ss_pred             HHHHHHHhhhC
Q 043204          170 ALHVFQEMDFQ  180 (504)
Q Consensus       170 a~~~~~~~~~~  180 (504)
                      |.+.|....+.
T Consensus       124 A~~~f~~a~~~  134 (165)
T PRK15331        124 ARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHhC
Confidence            77777776663

>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=96.65  E-value=0.013  Score=39.48  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=11.1

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHH
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQE  176 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~  176 (504)
                      +++.+..+|...|++++|++++++
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344444444444444444444444

...

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.63  E-value=0.0034  Score=36.62  Aligned_cols=40  Identities=13%  Similarity=0.217  Sum_probs=29.8

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMI   52 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~   52 (504)
                      ++..+...|.+.|++++|+++|+++.+..|+   |...|..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~---~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPD---DPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC---CHHHHHHhh
Confidence            3556777888888888888888888888776   666665554

>PRK11906 transcriptional regulator; Provisional

Probab=96.61  E-value=0.23  Score=45.38  Aligned_cols=158  Identities=12%  Similarity=0.069  Sum_probs=94.9

Q ss_pred             hHHHHHHHh--cC---ChhHHHHHHHHHH---hcCCCCCcchhcHHHHHHHHhc---------cCChhHHHHHHHHhhcC
Q 043204           12 TYLSQIIKK--QK---SPLTALKIFKEAK---EKYPNYRHNGPVYASMIGILSE---------SNRITEMKEVIDQMKGD   74 (504)
Q Consensus        12 ~~l~~~~~~--~~---~~~~A~~~~~~~~---~~~p~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~   74 (504)
                      ...+++...  .+   ..+.|+.+|+++.   +.+|+   ....|..+..++..         .....+|.++-++..+.
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~---~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAvel  333 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTL---KTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDI  333 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcc---cHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhc
Confidence            555555444  22   3467888899988   55554   34455444433221         23445677777777777


Q ss_pred             CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHH
Q 043204           75 SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSL  154 (504)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (504)
                      + +.|+.+...+..+..-.++++.|...|++....++ ..+.+|........-.|+.++|.+.+++...-.+...-....
T Consensus       334 d-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~P-n~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~  411 (458)
T PRK11906        334 T-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHST-DIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVI  411 (458)
T ss_pred             C-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCC-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHH
Confidence            7 77777777777777777788888888888777652 234445444555556777888888877755443333333333


Q ss_pred             HHHHHHHhhcCCHHHHHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQ  175 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~  175 (504)
                      ...++.|+..+ .+.|.+++-
T Consensus       412 ~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        412 KECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHcCCc-hhhhHHHHh
Confidence            44444555443 455555553

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.61  E-value=0.8  Score=44.84  Aligned_cols=119  Identities=9%  Similarity=0.098  Sum_probs=69.7

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH----HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF----ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL  122 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (504)
                      ....-++.+.+..-++-|..+-+.-.     .+..+.    .....-+.+.|++++|..-|-+-... +.|     ..++
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~-----~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi  404 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQH-----LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVI  404 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcC-----CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHH
Confidence            35556666667777777766654432     223333    33334445678888887777655432 233     3556


Q ss_pred             HHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204          123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      .-|....+...-..+++.+.+..-.  +...-..|+.+|.+.++.++..++.+...
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla--~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA--NSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc--cchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            6666666666666667666654322  22333667788888877777666665544

>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=96.61  E-value=0.15  Score=37.30  Aligned_cols=64  Identities=16%  Similarity=0.114  Sum_probs=44.9

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAK  469 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  469 (504)
                      .....++.....|+-+.-.+++.++.+. -.+++...-.+..+|.+.|+..++-+++.+.-+.|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            4455667778888888888888887753 367788888888889999999999888888888775

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.61  E-value=0.18  Score=43.43  Aligned_cols=152  Identities=7%  Similarity=-0.083  Sum_probs=72.8

Q ss_pred             ccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC---CCCccHHHHHHHHHHHHhcchHHH
Q 043204           57 ESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF---NCVNWTQSFNTLLKEMVKESKLEA  133 (504)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~  133 (504)
                      ..|+..+|...++++.+.. |.|...+...=.+|.-.|+...-...++.+...   +.+...++...+.-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            4455555555566655543 445555555555566666666555555555432   222222222223333445566666


Q ss_pred             HHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC---C-CCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 043204          134 AHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ---G-CYPDRESYHILMKGLCNDRRLNEATHLL  209 (504)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~  209 (504)
                      |++.-++..+-+  +.|.-.-.++...+--.|+..++.+...+-...   + +... .-|-...-.+...+.++.|+++|
T Consensus       194 AEk~A~ralqiN--~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlas-HNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  194 AEKQADRALQIN--RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLAS-HNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHHhhccCC--CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHh-hhhHHHHHhhhcccchhHHHHHH
Confidence            666665555432  223334444555555556666666555433221   0 0111 11222233344556666666666


Q ss_pred             HHH
Q 043204          210 YSM  212 (504)
Q Consensus       210 ~~~  212 (504)
                      +.-
T Consensus       271 D~e  273 (491)
T KOG2610|consen  271 DRE  273 (491)
T ss_pred             HHH
Confidence            543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=96.55  E-value=0.93  Score=44.85  Aligned_cols=188  Identities=13%  Similarity=0.116  Sum_probs=113.6

Q ss_pred             hHHHHHHHHHHhcCCCCCcc--hhcHHHHHHHHh-ccCChhHHHHHHHHhhcCCCCccHH-----HHHHHHHHHHhcCCh
Q 043204           25 LTALKIFKEAKEKYPNYRHN--GPVYASMIGILS-ESNRITEMKEVIDQMKGDSCECKDS-----VFATAIRTYARAGQL   96 (504)
Q Consensus        25 ~~A~~~~~~~~~~~p~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~   96 (504)
                      ..|++.++.+.+. +.+.|.  ..++..+...+. ...+++.|+..+++.....-.++-.     ....+++.+.+.+..
T Consensus        38 ~~ai~CL~~~~~~-~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~  116 (608)
T PF10345_consen   38 ATAIKCLEAVLKQ-FKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPK  116 (608)
T ss_pred             HHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHH
Confidence            4467777777742 233333  445666777766 6789999999998875433222221     234456666666655


Q ss_pred             hHHHHHHHHhhh----CCCCccHHHHHHH-HHHHHhcchHHHHHHHHHHhhcCCC--CcchHHHHHHHHHHHh--hcCCH
Q 043204           97 NEAVSLFKNLSQ----FNCVNWTQSFNTL-LKEMVKESKLEAAHILFLRSCYGWE--VKSRIQSLNLLMDVLC--QCRRS  167 (504)
Q Consensus        97 ~~a~~~~~~~~~----~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~--~~~~~  167 (504)
                      . |.+.++...+    .+..++...|.-+ +..+...++...|.+.++.+.....  ..|-+.++..++.+..  +.+..
T Consensus       117 ~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~  195 (608)
T PF10345_consen  117 A-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSP  195 (608)
T ss_pred             H-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCc
Confidence            5 8888887553    3444666666665 4444444799999999988765432  3444555555555443  44656


Q ss_pred             HHHHHHHHHhhhCC---------CCCCHhhHHHHHHHH--HhcCCHHHHHHHHHHHHH
Q 043204          168 DLALHVFQEMDFQG---------CYPDRESYHILMKGL--CNDRRLNEATHLLYSMFW  214 (504)
Q Consensus       168 ~~a~~~~~~~~~~~---------~~p~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~  214 (504)
                      +.+.+.++++....         ..|-..+|..++..+  ...|+++.+.+.++++..
T Consensus       196 ~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  196 DDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             hhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777663321         123455666666654  467777777777766643

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.51  E-value=0.034  Score=50.32  Aligned_cols=64  Identities=16%  Similarity=0.086  Sum_probs=47.6

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcch---hcHHHHHHHHhccCChhHHHHHHHHhhcC
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNG---PVYASMIGILSESNRITEMKEVIDQMKGD   74 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (504)
                      ...++.+..+|...|++++|+..|++.++.+|+   +.   .+|..+..+|...|+.++|++.+++..+.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd---~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPN---PDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC---chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344667777788888888888888888877665   33   34777788888888888888888887765

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.46  E-value=0.17  Score=44.11  Aligned_cols=172  Identities=14%  Similarity=0.013  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch---HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC-----CCCCHhh
Q 043204          117 SFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR---IQSLNLLMDVLCQCRRSDLALHVFQEMDFQG-----CYPDRES  188 (504)
Q Consensus       117 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~p~~~~  188 (504)
                      .|..+.+++-+.-++.+++.+-..-...++..|.   -....++..++.-.+.++++++.|+...+--     .-.....
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            3444555555555555555555544444443331   1122335556666677777777777665421     1122346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH-----HHHHHHHHhcCchhHHHHHHHHHHHcCC----CCC
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY-----RTLLFALCDQGKIQDAMQILEKILRKGL----KAP  259 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~  259 (504)
                      +-.|-..|.+..|+++|.-+..+..+.....++..=..-|     ..|.-++-..|....|.+.-++..+..+    .+.
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            7777777888888888877777665544444433211222     2344566677888778777777655433    222


Q ss_pred             cchhhhhhccccCCCCChHHHHHHHHHHH
Q 043204          260 KSRRHRIDLCPCNDGEDIEGAKSLINEAL  288 (504)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  288 (504)
                      .......+...|...|+.+.|+.-|+...
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            23333345666777777777777666554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.43  E-value=0.26  Score=37.75  Aligned_cols=125  Identities=14%  Similarity=0.144  Sum_probs=58.4

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE  128 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (504)
                      ..++..+...+.+......++.+...+ ..+...++.++..|++.+ .....+.+..  .    .+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~----~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--K----SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--c----cccCCHHHHHHHHHHc
Confidence            445555555555566666666655554 344555566666665542 2222333321  1    1111223455555555


Q ss_pred             chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc-CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043204          129 SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC-RRSDLALHVFQEMDFQGCYPDRESYHILMKGLC  197 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  197 (504)
                      +-++++..++.++...          ...+..+... ++++.|.+++.+-      -+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~~----------~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGNF----------KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcCH----------HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            5555555555554211          1222223333 5566666655541      14445555555443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.41  E-value=0.16  Score=46.48  Aligned_cols=150  Identities=15%  Similarity=0.150  Sum_probs=74.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      ++.-.-+..++++-++.-.++++.+|+   -..+|..|.  --......++.+++++..+.|    ...+       .+.
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei~pd---CAdAYILLA--EEeA~Ti~Eae~l~rqAvkAg----E~~l-------g~s  237 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEINPD---CADAYILLA--EEEASTIVEAEELLRQAVKAG----EASL-------GKS  237 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhhhh---hhHHHhhcc--cccccCHHHHHHHHHHHHHHH----HHhh-------chh
Confidence            344444555666666666666665443   222332221  122344567777777666543    0000       000


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      ...+..-..++.+..++..+-..+-..+...+-+.|+.++|.+.|+++.+..+...+......|+.++...+.+.++..+
T Consensus       238 ~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  238 QFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             hhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            00000001112222223233333334455555666777777777777765433333344556677777777777777777


Q ss_pred             HHHhhh
Q 043204          174 FQEMDF  179 (504)
Q Consensus       174 ~~~~~~  179 (504)
                      +.+-.+
T Consensus       318 L~kYdD  323 (539)
T PF04184_consen  318 LAKYDD  323 (539)
T ss_pred             HHHhcc
Confidence            776643

The molecular function of this protein is uncertain.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.31  E-value=0.053  Score=45.44  Aligned_cols=90  Identities=16%  Similarity=0.128  Sum_probs=54.6

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHHHHhcCChh
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      +.|++..|...|....+.+|+-.-...++--|...+...|++++|..+|..+.+...  +--+..+.-|..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            445577777777777777666444445555566677777777777777766665421  111234555555666666666


Q ss_pred             HHHHHHHHhhhC
Q 043204           98 EAVSLFKNLSQF  109 (504)
Q Consensus        98 ~a~~~~~~~~~~  109 (504)
                      +|..+|+++.+.
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.31  E-value=0.25  Score=43.15  Aligned_cols=235  Identities=14%  Similarity=0.076  Sum_probs=147.4

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHH----hhcCC-CCccHHHHHHHHHHHHh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQ----MKGDS-CECKDSVFATAIRTYAR   92 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~-~~~~~~~~~~l~~~~~~   92 (504)
                      +..+.+.++|+..+.+.+.+..+......+|..+..+..+.|.+++++..--.    ..+.. -..--..|..+.+++-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567889999999888876433222345677777888888888877654322    11111 00111345566666666


Q ss_pred             cCChhHHHHHHHHhhhC-CCCc---cHHHHHHHHHHHHhcchHHHHHHHHHHhhc----CCCCcchHHHHHHHHHHHhhc
Q 043204           93 AGQLNEAVSLFKNLSQF-NCVN---WTQSFNTLLKEMVKESKLEAAHILFLRSCY----GWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .-++.+++.+-..-... |..|   .-....++..++...+.++++++.|+....    ..+.-....++-.|-..|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            66677777666543321 1111   123445677788888999999999987653    112222356788899999999


Q ss_pred             CCHHHHHHHHHHhhh----CCCCCCHh-hH-----HHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHH
Q 043204          165 RRSDLALHVFQEMDF----QGCYPDRE-SY-----HILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLF  233 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~----~~~~p~~~-~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~  233 (504)
                      .|+++|.-+..+..+    .++. |.. -|     ..+.-++...|..-.|.+.-++..+.....|-.+. ......+.+
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aD  254 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFAD  254 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            999998876655433    2222 221 12     23334566788888888887777554455664432 234456778


Q ss_pred             HHHhcCchhHHHHHHHHHHH
Q 043204          234 ALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       234 ~~~~~g~~~~a~~~~~~~~~  253 (504)
                      .|-..|+.+.|..-|++...
T Consensus       255 IyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  255 IYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHhcccHhHHHHHHHHHHH
Confidence            89999999999988887644

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.069  Score=47.29  Aligned_cols=94  Identities=11%  Similarity=-0.044  Sum_probs=50.2

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVC  484 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~  484 (504)
                      ++..|.-+|.+.+++..|.+.-...++.+ ++|....-.=..+|...|+++.|+..|+++++  +.|+......=+..|.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLK  335 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHH
Confidence            34555556666666666666666666654 44555555555666666666666666666663  3455444433333322


Q ss_pred             cCCCc-hhHHHHHHHHhh
Q 043204          485 CNTAD-LNVCRKTLEQLS  501 (504)
Q Consensus       485 ~~~~~-~~~a~~~~~~~~  501 (504)
                      ..... .+...++|..|.
T Consensus       336 ~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            22222 223355555554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.22  E-value=0.38  Score=45.50  Aligned_cols=128  Identities=13%  Similarity=0.082  Sum_probs=59.6

Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHH-----HHHHHHHHHhh----cCCHHHHHHHHHHhhhCCCCCCHhhHHHH-H
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQ-----SLNLLMDVLCQ----CRRSDLALHVFQEMDFQGCYPDRESYHIL-M  193 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l-~  193 (504)
                      ...-.||-+.+++.+....+..++.....     .|+.++..+..    ..+.+.|.++++.+.+.  -|+...|... .
T Consensus       197 ~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~g  274 (468)
T PF10300_consen  197 FVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEG  274 (468)
T ss_pred             hcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHH
Confidence            33344555666666655554444432221     23333322222    34555666666666654  4554444332 2


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          194 KGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       194 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      +.+...|++++|.+.|+..... ...-.+.....+--+.-++.-.++|++|.+.|..+.+.
T Consensus       275 R~~~~~g~~~~Ai~~~~~a~~~-q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~  334 (468)
T PF10300_consen  275 RLERLKGNLEEAIESFERAIES-QSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKE  334 (468)
T ss_pred             HHHHHhcCHHHHHHHHHHhccc-hhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhc
Confidence            3344566666666666654210 00000112233334445555556666666666666553

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.21  E-value=0.77  Score=42.26  Aligned_cols=60  Identities=15%  Similarity=0.121  Sum_probs=35.9

Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          335 EAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       335 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      ..+..++-+.|+.++|++.++++++.............|+.++...+.+.++..++.+..
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            345555556677777777777644444322233455566667777777777777666654

The molecular function of this protein is uncertain.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.20  E-value=0.88  Score=40.91  Aligned_cols=97  Identities=12%  Similarity=-0.032  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCc--chHHHHHHHHHHHhh---cCCHHHHHHHHHHhhhCCCCCCHhhHH
Q 043204          116 QSFNTLLKEMVKESKLEAAHILFLRSCYGWEVK--SRIQSLNLLMDVLCQ---CRRSDLALHVFQEMDFQGCYPDRESYH  190 (504)
Q Consensus       116 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~  190 (504)
                      .+...++-.|-...+++..+++++.+..-+...  .....-....-++-+   .|+.++|++++..+....-.+++.+|.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            344455556777778888888887776442211  111111223344555   677888888877755555566777777


Q ss_pred             HHHHHHHh---------cCCHHHHHHHHHHH
Q 043204          191 ILMKGLCN---------DRRLNEATHLLYSM  212 (504)
Q Consensus       191 ~l~~~~~~---------~~~~~~a~~~~~~~  212 (504)
                      .+.+.|-.         ....++|...|.+.
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kg  252 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKG  252 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHH
Confidence            76665521         12345555555554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.19  E-value=1.8  Score=44.37  Aligned_cols=82  Identities=18%  Similarity=0.110  Sum_probs=44.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcc--hHHHHHHHH
Q 043204          371 NILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVE--TYNVLIRGL  448 (504)
Q Consensus       371 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~  448 (504)
                      .+....+...+.+++|.-+|+..-+.          .-.+.+|..+|++.+|..+..++...   -+..  +-..|+.-+
T Consensus       943 ~~ya~hL~~~~~~~~Aal~Ye~~Gkl----------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  943 EAYADHLREELMSDEAALMYERCGKL----------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHhccccHHHHHHHHhccH----------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHH
Confidence            33334444556666666666654321          33455666667777776666655431   1111  124555566


Q ss_pred             HccCCHHHHHHHHHHHH
Q 043204          449 CSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       449 ~~~g~~~~a~~~~~~~~  465 (504)
                      ...+++-+|-+++.+..
T Consensus      1010 ~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHcccchhHHHHHHHHh
Confidence            66677767666666654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.18  E-value=0.92  Score=40.82  Aligned_cols=163  Identities=11%  Similarity=-0.034  Sum_probs=79.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCC---CCcchhhHHHHHHHHhc---CCCHHHHHHHHHHHHhcCCCCccHHHHHHHH
Q 043204          301 AMAIDLYNEGRIVEGDKVLDEMRTKG---FWPSLVMYEAKLAALFK---DGMVDEALEVIEEEMVKGTFVPTVRVYNILL  374 (504)
Q Consensus       301 ~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  374 (504)
                      .++-+|-...+++..+++++.+....   +.-....-....-++.+   .|+.++|++++...+. ..-.++..+|..+.
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~-~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE-SDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh-ccCCCChHHHHHHH
Confidence            44444555566666666666665531   00011111122333444   6666666666665222 22345555655555


Q ss_pred             HHHHh---------cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcH----HHHHHHH----HHHHhcCc---
Q 043204          375 KGLCD---------AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRF----LEASRVL----EEMLIRSY---  434 (504)
Q Consensus       375 ~~~~~---------~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~----~~A~~~~----~~~~~~~~---  434 (504)
                      +.|-.         ....++|...|.+.-   .+.|+..+--.++..+...|..    .+..++-    ....+.|.   
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            54421         122556666666544   3345443322222222223321    1222222    11222332   


Q ss_pred             CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          435 WPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       435 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                      ..+-..+.+++.++.-.|++++|.+..++|.+.
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            233444566778888889999999999998855

>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=96.17  E-value=0.27  Score=45.73  Aligned_cols=154  Identities=12%  Similarity=0.085  Sum_probs=78.1

Q ss_pred             hccCChhHHHHHHH--HhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH
Q 043204           56 SESNRITEMKEVID--QMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA  133 (504)
Q Consensus        56 ~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  133 (504)
                      .-.++++++.++.+  .+.. .  .+....+.+++.+.+.|..+.|+++-..         .   ..-.....+.|+++.
T Consensus       272 v~~~d~~~v~~~i~~~~ll~-~--i~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~L~~  336 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLP-N--IPKDQGQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGNLDI  336 (443)
T ss_dssp             HHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-HHH
T ss_pred             HHcCChhhhhhhhhhhhhcc-c--CChhHHHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCCHHH
Confidence            34556666555543  1211 1  1233456666666666777766665321         1   233445556677776


Q ss_pred             HHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043204          134 AHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMF  213 (504)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  213 (504)
                      |.++.++..       +...|..|.....+.|+++-|++.|.+..+         |..|+-.|.-.|+.+...++.+.. 
T Consensus       337 A~~~a~~~~-------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a-  399 (443)
T PF04053_consen  337 ALEIAKELD-------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA-  399 (443)
T ss_dssp             HHHHCCCCS-------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH-
T ss_pred             HHHHHHhcC-------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH-
Confidence            666653331       445677777777777777777777766553         455555566666666655555444 


Q ss_pred             HHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 043204          214 WRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEK  250 (504)
Q Consensus       214 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  250 (504)
                         ...|      -++....++...|+.++..+++.+
T Consensus       400 ---~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  400 ---EERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             ---HHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ---HHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence               3332      234445555556666666666654

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.16  E-value=0.41  Score=36.68  Aligned_cols=131  Identities=13%  Similarity=0.185  Sum_probs=92.2

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +......++..+...+.+.....+++.+...++   .+...++.++..|++.+ ..+..+.++.      ..+......+
T Consensus         6 ~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~---~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~   75 (140)
T smart00299        6 DPIDVSEVVELFEKRNLLEELIPYLESALKLNS---ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKV   75 (140)
T ss_pred             CcCCHHHHHHHHHhCCcHHHHHHHHHHHHccCc---cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHH
Confidence            345567889999989999999999999998743   47778999999998764 4455555552      1233445668


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc-chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE-SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      ++.|.+.+-++++..++..+...         ...+..+... ++++.|.+.+.+..       +...|..++..+..
T Consensus        76 ~~~c~~~~l~~~~~~l~~k~~~~---------~~Al~~~l~~~~d~~~a~~~~~~~~-------~~~lw~~~~~~~l~  137 (140)
T smart00299       76 GKLCEKAKLYEEAVELYKKDGNF---------KDAIVTLIEHLGNYEKAIEYFVKQN-------NPELWAEVLKALLD  137 (140)
T ss_pred             HHHHHHcCcHHHHHHHHHhhcCH---------HHHHHHHHHcccCHHHHHHHHHhCC-------CHHHHHHHHHHHHc
Confidence            88888989999999888776321         2344444444 78888888887632       34577777766653

>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=96.13  E-value=0.21  Score=46.50  Aligned_cols=133  Identities=18%  Similarity=0.131  Sum_probs=76.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Q 043204          297 ASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKG  376 (504)
Q Consensus       297 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  376 (504)
                      ...+.++.-+-+.|..+.|+.+...-..            -.....+.|+++.|.++.++       .++...|..|...
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~-------~~~~~~W~~Lg~~  356 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKE-------LDDPEKWKQLGDE  356 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCC-------CSTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHh-------cCcHHHHHHHHHH
Confidence            3355555555556666666665432211            12334556777777664433       3456677777777


Q ss_pred             HHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHH
Q 043204          377 LCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYE  456 (504)
Q Consensus       377 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  456 (504)
                      ....|+++-|.+.|++...          +..|+-.|...|+.+.-.++.+....+|      -++....++.-.|+.++
T Consensus       357 AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~  420 (443)
T PF04053_consen  357 ALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEE  420 (443)
T ss_dssp             HHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHH
T ss_pred             HHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHH
Confidence            7777777777777776542          4556566667777777666666666554      24555555566677776


Q ss_pred             HHHHHHHH
Q 043204          457 AVMWLEEM  464 (504)
Q Consensus       457 a~~~~~~~  464 (504)
                      ..+++.+-
T Consensus       421 cv~lL~~~  428 (443)
T PF04053_consen  421 CVDLLIET  428 (443)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHc
Confidence            66665544

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.08  E-value=0.22  Score=44.29  Aligned_cols=125  Identities=12%  Similarity=0.042  Sum_probs=76.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCCc------------chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH
Q 043204           16 QIIKKQKSPLTALKIFKEAKEKYPNYRH------------NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF   83 (504)
Q Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (504)
                      ..|.+.|++..|...|+++....+...+            -..+++.+.-++.+.+++..|++.....+..+ ++|.-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            4677788888888888887654321000            12345666667777777777777777777776 6677776


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH-HHHHHHHhh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA-AHILFLRSC  142 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~  142 (504)
                      ..-..++...|+++.|...|+.+.+..+.. ..+-+.|+..-.+..+... ..++|..|-
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~P~N-ka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLEPSN-KAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhCCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            667777777777777777777777654222 2333344444434333332 244555543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.04  E-value=0.82  Score=39.04  Aligned_cols=177  Identities=16%  Similarity=0.133  Sum_probs=112.3

Q ss_pred             hHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204           62 TEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      +...+++++....   +.... ..-.......|++..|..+|....+..... ...-..+...|...|+++.|..++..+
T Consensus       120 sqlr~~ld~~~~~---~~e~~-~~~~~~~~~~e~~~~a~~~~~~al~~~~~~-~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         120 SQLRQFLDKVLPA---EEEEA-LAEAKELIEAEDFGEAAPLLKQALQAAPEN-SEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             HHHHHHHHHhcCh---HHHHH-HHHhhhhhhccchhhHHHHHHHHHHhCccc-chHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            3445555555432   22222 223445567889999999999887765443 455668888999999999999999887


Q ss_pred             hcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC
Q 043204          142 CYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS  221 (504)
Q Consensus       142 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  221 (504)
                      ...... ........-|..+.+.....+...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+++  ++.|.
T Consensus       195 P~~~~~-~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~--~d~~~  269 (304)
T COG3118         195 PLQAQD-KAAHGLQAQIELLEQAAATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR--RDRGF  269 (304)
T ss_pred             cccchh-hHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hcccc
Confidence            654211 11222223455566666666666666666553  22666777788888899999999888766653  33444


Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          222 GEDIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       222 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      . |...-..++..+.-.|.-+.+...++
T Consensus       270 ~-d~~~Rk~lle~f~~~g~~Dp~~~~~R  296 (304)
T COG3118         270 E-DGEARKTLLELFEAFGPADPLVLAYR  296 (304)
T ss_pred             c-CcHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            4 55667777777777775444443333

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.03  E-value=0.33  Score=44.26  Aligned_cols=65  Identities=11%  Similarity=0.140  Sum_probs=42.7

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcch--hhHHHHHHHHhcCCCHHHHHHHHHHHHh
Q 043204          295 SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSL--VMYEAKLAALFKDGMVDEALEVIEEEMV  359 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  359 (504)
                      +...++.+..+|.+.|++++|+..|++..+.++....  .+|..+..+|...|+.++|++.+++++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4456667777777777777777777777665422111  3467777777777777777777777554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.03  E-value=2.2  Score=43.84  Aligned_cols=79  Identities=16%  Similarity=0.124  Sum_probs=37.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCcchh--hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhc
Q 043204          303 AIDLYNEGRIVEGDKVLDEMRTKGFWPSLV--MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDA  380 (504)
Q Consensus       303 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  380 (504)
                      +.+|-..|++.+|..+..++....   +..  +-..|+.-+...++.-+|-++..+ ...   .|     ...+..|++.
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~~---de~~~~a~~L~s~L~e~~kh~eAa~il~e-~~s---d~-----~~av~ll~ka 1039 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEGK---DELVILAEELVSRLVEQRKHYEAAKILLE-YLS---DP-----EEAVALLCKA 1039 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCCH---HHHHHHHHHHHHHHHHcccchhHHHHHHH-Hhc---CH-----HHHHHHHhhH
Confidence            344444455555555554443210   111  113455555666666666666554 221   11     1223345555


Q ss_pred             CChHHHHHHHHHH
Q 043204          381 GNSAVAVMYLKKM  393 (504)
Q Consensus       381 ~~~~~a~~~~~~~  393 (504)
                      ..+++|..+....
T Consensus      1040 ~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1040 KEWEEALRVASKA 1052 (1265)
T ss_pred             hHHHHHHHHHHhc
Confidence            6666666655443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.98  E-value=0.99  Score=39.46  Aligned_cols=228  Identities=11%  Similarity=0.069  Sum_probs=125.0

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhc-----HHHHHHHHhccC-ChhHHHHHHHHhhcC--------CCCccH---
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPV-----YASMIGILSESN-RITEMKEVIDQMKGD--------SCECKD---   80 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~-----~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~---   80 (504)
                      ..++|+.+.|...+.++....+...|+...     +..........+ +++.|..++++..+.        ...++.   
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            357899999999999998875333333321     222233334555 888888877665432        112222   


Q ss_pred             --HHHHHHHHHHHhcCChh---HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHH
Q 043204           81 --SVFATAIRTYARAGQLN---EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLN  155 (504)
Q Consensus        81 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (504)
                        .++..++.+|...+..+   +|.++++.+.+.... ...++.--++.+.+.++.+.+.+.+.+|....+.  ....+.
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~--~e~~~~  159 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH--SESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc--ccchHH
Confidence              34677778888777654   455566666443222 2455556677777789999999999999876442  122334


Q ss_pred             HHHHHH---hhcCCHHHHHHHHHHhhhCCCCCCHh-hHHHH-HH-H--HHhcCC------HHHHHHHHHHHHHHHhhCCC
Q 043204          156 LLMDVL---CQCRRSDLALHVFQEMDFQGCYPDRE-SYHIL-MK-G--LCNDRR------LNEATHLLYSMFWRISQKGS  221 (504)
Q Consensus       156 ~l~~~~---~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l-~~-~--~~~~~~------~~~a~~~~~~~~~~~~~~~~  221 (504)
                      ..+..+   .. .....+...++.+....+.|... ....+ +. .  ..+.++      .+...++++.+.   ...+.
T Consensus       160 ~~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~---~~~~~  235 (278)
T PF08631_consen  160 SILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVE---HSLGK  235 (278)
T ss_pred             HHHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHH---HHhcC
Confidence            444443   33 33456667777666554555543 11111 11 1  112211      444444444331   11222


Q ss_pred             CcCHHHHHH---H----HHHHHhcCchhHHHHHHHHHH
Q 043204          222 GEDIVIYRT---L----LFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       222 ~~~~~~~~~---l----~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      +.+..+-.+   +    ...+.+.++++.|.++|+-..
T Consensus       236 ~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  236 QLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            333333222   2    233456778888888887544

It is also involved in sporulation [].

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

Probab=95.87  E-value=1.3  Score=40.09  Aligned_cols=434  Identities=11%  Similarity=0.029  Sum_probs=220.5

Q ss_pred             HHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           27 ALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        27 A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      -+++=+++. .+|.   |..+|-.|+.-+..++..++..+++++|..-- +--+.+|..-+..-...+++...+.+|.+.
T Consensus        28 ~lrLRerIk-dNPt---nI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rC  102 (660)
T COG5107          28 ELRLRERIK-DNPT---NILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRC  102 (660)
T ss_pred             HHHHHHHhh-cCch---hHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHH
Confidence            335555554 4676   89999999999999999999999999998643 445567887788777789999999999998


Q ss_pred             hhCCCCccHHHHHHHHHHHHhcchH------HHHHHHHHHhhcCCCCcch-HHHHHHHHHH---HhhcCC------HHHH
Q 043204          107 SQFNCVNWTQSFNTLLKEMVKESKL------EAAHILFLRSCYGWEVKSR-IQSLNLLMDV---LCQCRR------SDLA  170 (504)
Q Consensus       107 ~~~~~~~~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~---~~~~~~------~~~a  170 (504)
                      .......|  .|...+.--.+.+..      ....+.|+-...-.++.|- ...|+..+..   .-..|.      .+..
T Consensus       103 L~k~l~ld--LW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~i  180 (660)
T COG5107         103 LKKSLNLD--LWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKI  180 (660)
T ss_pred             HhhhccHh--HHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHH
Confidence            87765544  444444433232211      1122233332222233332 2234444333   223344      4455


Q ss_pred             HHHHHHhhhCCCCCCH-hhH------HHHHHHH-H------hcCCHHHHHHHHHHHHHHHhhCCCCc----CHHHHHH--
Q 043204          171 LHVFQEMDFQGCYPDR-ESY------HILMKGL-C------NDRRLNEATHLLYSMFWRISQKGSGE----DIVIYRT--  230 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~-~~~------~~l~~~~-~------~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~~~~--  230 (504)
                      .+.+.++...-+. +. ..|      ..=++-. +      ..--+..|.+.++++..  ...|...    +..+++.  
T Consensus       181 R~~Y~ral~tP~~-nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~n--lt~Gl~v~~~~~~Rt~nK~~  257 (660)
T COG5107         181 RNGYMRALQTPMG-NLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQN--LTRGLSVKNPINLRTANKAA  257 (660)
T ss_pred             HHHHHHHHcCccc-cHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHH--HhccccccCchhhhhhcccc
Confidence            6667777754221 11 111      1111110 0      11123445555555421  1122111    1111111  


Q ss_pred             ---------HHHHHHhc-----Cc--hhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC
Q 043204          231 ---------LLFALCDQ-----GK--IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP  294 (504)
Q Consensus       231 ---------l~~~~~~~-----g~--~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  294 (504)
                               .|..=...     |+  .....-++++....  .+-....+.-........+|-+.|.........-  .|
T Consensus       258 r~s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y--~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--sp  333 (660)
T COG5107         258 RTSDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY--FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SP  333 (660)
T ss_pred             ccccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH--hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CC
Confidence                     11111110     00  01111222222211  0011111111112222333444444333322211  11


Q ss_pred             ChhhHHHHHHHHHhc-CChhHHHHHHHHHHH-----------------------------CCCCcchhhHHHHHHHHhcC
Q 043204          295 SLASYSAMAIDLYNE-GRIVEGDKVLDEMRT-----------------------------KGFWPSLVMYEAKLAALFKD  344 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~-----------------------------~~~~~~~~~~~~l~~~~~~~  344 (504)
                      +   ....+.-|... .+-+.....|+...+                             .....-..+|...++.-.+.
T Consensus       334 s---L~~~lse~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~  410 (660)
T COG5107         334 S---LTMFLSEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRK  410 (660)
T ss_pred             c---hheeHHHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            1   11111111111 111111111111110                             00001234566677777777


Q ss_pred             CCHHHHHHHHHHHHhcCC-CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhH-HHHHHHHhhcCcHHHH
Q 043204          345 GMVDEALEVIEEEMVKGT-FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETY-GILVDGLCRDGRFLEA  422 (504)
Q Consensus       345 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A  422 (504)
                      .-++.|..+|-+ ..+.+ ..+++.++++++..++ .|++..|..+|+.-...   -||...| .-.+.-+...++-+.|
T Consensus       411 ~Gl~aaR~~F~k-~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl~fLi~inde~na  485 (660)
T COG5107         411 RGLEAARKLFIK-LRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYLLFLIRINDEENA  485 (660)
T ss_pred             hhHHHHHHHHHH-HhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHHHHHHHhCcHHHH
Confidence            778888888887 66666 5677778888886554 57788888888876654   2343333 4455666777888888


Q ss_pred             HHHHHHHHhcCcCCC--cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 043204          423 SRVLEEMLIRSYWPC--VETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCC  485 (504)
Q Consensus       423 ~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  485 (504)
                      ..+|+...++ +..+  ...|..+|.--..-|+...|..+=++|.+  +.|...+.....+.|..
T Consensus       486 raLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry~i  547 (660)
T COG5107         486 RALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYAI  547 (660)
T ss_pred             HHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHhh
Confidence            8888866654 2222  56788888887888888888888777774  34555555555544433

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.79  E-value=1.5  Score=39.95  Aligned_cols=416  Identities=12%  Similarity=0.109  Sum_probs=200.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHH--HHhccCChhHHHHHHHHhhcC--CCC-----------
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIG--ILSESNRITEMKEVIDQMKGD--SCE-----------   77 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~--~~~-----------   77 (504)
                      .++.+|... +.+..........+..|     ...|..+..  .+-+.+.+.+|.+.+......  +-.           
T Consensus        51 rilnAffl~-nld~Me~~l~~l~~~~~-----~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l  124 (549)
T PF07079_consen   51 RILNAFFLN-NLDLMEKQLMELRQQFG-----KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQL  124 (549)
T ss_pred             HHHHHHHHh-hHHHHHHHHHHHHHhcC-----CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHH
Confidence            344444433 45555555555555533     222333332  234667888888887766543  211           


Q ss_pred             -ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC----CCCccHHHHHHHHHHHHhcchH---------------HHHHHH
Q 043204           78 -CKDSVFATAIRTYARAGQLNEAVSLFKNLSQF----NCVNWTQSFNTLLKEMVKESKL---------------EAAHIL  137 (504)
Q Consensus        78 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~---------------~~a~~~  137 (504)
                       +|-..=+..+..++..|++.++..+++++...    ...-+..+|+.++-.+.+.=-+               +.+.-.
T Consensus       125 ~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY  204 (549)
T PF07079_consen  125 FSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFY  204 (549)
T ss_pred             hhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHH
Confidence             11122255677788889999998888887653    2335667777766655544211               111111


Q ss_pred             HHHhhcCC-----CCcchHHHHHHHHHHHhhc--CCHHHHHHHHHHhhhCCCCCCHhh-HHHHHHHHHhcCCHHHHHHHH
Q 043204          138 FLRSCYGW-----EVKSRIQSLNLLMDVLCQC--RRSDLALHVFQEMDFQGCYPDRES-YHILMKGLCNDRRLNEATHLL  209 (504)
Q Consensus       138 ~~~~~~~~-----~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~  209 (504)
                      ..++....     .+.|.......++....-.  ....--.++++.....-+.|+-.. ...+...+..  +.+++..+-
T Consensus       205 ~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~c  282 (549)
T PF07079_consen  205 LKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFC  282 (549)
T ss_pred             HHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHH
Confidence            11111000     1122222222222222211  111222233333333334454321 2222222222  445555444


Q ss_pred             HHHHHHHhhCCCC----cCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHH
Q 043204          210 YSMFWRISQKGSG----EDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLIN  285 (504)
Q Consensus       210 ~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  285 (504)
                      +.+    ....+.    .=+.++..++....+.++...|...+.-+...  .|......-++           ...+.+.
T Consensus       283 e~i----a~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kll-----------ls~~~lq  345 (549)
T PF07079_consen  283 EAI----ASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLL-----------LSPKVLQ  345 (549)
T ss_pred             HHH----HHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhh-----------cCHHHHH
Confidence            443    111111    12457788888888888888888888777654  33322222111           1112222


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHH---HHHhcCCC-HHHHHHHHHHHHhcC
Q 043204          286 EALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKL---AALFKDGM-VDEALEVIEEEMVKG  361 (504)
Q Consensus       286 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~~~-~~~a~~~~~~~~~~~  361 (504)
                      .+...    |...++.+          ..-+.+|+.....++. .......|+   .-+-+.|. -++|+++++..+.-.
T Consensus       346 ~Iv~~----DD~~~Tkl----------r~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft  410 (549)
T PF07079_consen  346 DIVCE----DDESYTKL----------RDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT  410 (549)
T ss_pred             HHHhc----chHHHHHH----------HHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc
Confidence            22221    22222221          2223444444443322 111111122   22333444 777888887633322


Q ss_pred             CCCccHHHHHHHH----HHHHhc---CChHHHHHHHHHHHHhcCCCCch----hhHHHHHHH--HhhcCcHHHHHHHHHH
Q 043204          362 TFVPTVRVYNILL----KGLCDA---GNSAVAVMYLKKMSKQVGCVANG----ETYGILVDG--LCRDGRFLEASRVLEE  428 (504)
Q Consensus       362 ~~~~~~~~~~~l~----~~~~~~---~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~--~~~~g~~~~A~~~~~~  428 (504)
                        .-|..+-+.+.    .+|.+.   ..+.+-..+-+-+.+. |++|-.    ..-|.|.++  +...|++.++.-.-..
T Consensus       411 --~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~-gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~W  487 (549)
T PF07079_consen  411 --NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEV-GLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSW  487 (549)
T ss_pred             --cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc-CCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence              23433333222    233322   2233333333333343 776643    344555544  3457888887766555


Q ss_pred             HHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 043204          429 MLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSS  478 (504)
Q Consensus       429 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  478 (504)
                      +.+  +.|++.+|..+.-+.....++++|..++..+     +|+..++++
T Consensus       488 L~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~ds  530 (549)
T PF07079_consen  488 LTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDS  530 (549)
T ss_pred             HHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHH
Confidence            555  5689999998888888889999999888876     466666554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=95.57  E-value=0.078  Score=44.38  Aligned_cols=88  Identities=10%  Similarity=0.185  Sum_probs=55.5

Q ss_pred             CcchhcHHHHHHHHhcc-----CChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC----------------ChhHHH
Q 043204           42 RHNGPVYASMIGILSES-----NRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG----------------QLNEAV  100 (504)
Q Consensus        42 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~  100 (504)
                      +.|..+|.+.+..+...     +.++-....++.|.+.|+..|..+|+.|+..+-+..                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44666777777666543     445555666777888888888888888877654321                223456


Q ss_pred             HHHHHhhhCCCCccHHHHHHHHHHHHhcc
Q 043204          101 SLFKNLSQFNCVNWTQSFNTLLKEMVKES  129 (504)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  129 (504)
                      +++++|...|+.||-.+-..|++++.+.+
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            66666666666666666666666665544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.51  E-value=0.24  Score=36.20  Aligned_cols=54  Identities=15%  Similarity=0.155  Sum_probs=34.3

Q ss_pred             HHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh
Q 043204           54 ILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (504)
                      +++..|+.+.|++.|.+....- |.+...||.-..++.-.|+.++|+.-+++..+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            4556666666666666666554 45556666666666666666666666666554

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.43  E-value=0.93  Score=35.23  Aligned_cols=52  Identities=13%  Similarity=0.079  Sum_probs=21.9

Q ss_pred             hcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           92 RAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      ..|.++....-.+-+...+.+.....-..|.-+-.+.|++..|.+.|..+..
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            3444444444444443333233233333344444444444444444444443

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

Probab=95.41  E-value=0.16  Score=42.61  Aligned_cols=88  Identities=18%  Similarity=0.174  Sum_probs=61.2

Q ss_pred             ChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCC----------------CHHHHHHH
Q 043204          295 SLASYSAMAIDLYNE-----GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDG----------------MVDEALEV  353 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~~  353 (504)
                      |..+|...+..+...     +.++-....++.|.+.|+.-|..+|+.|++.+-+..                +-+-++.+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            455555555555433     555666666777888888888888888887765432                23456778


Q ss_pred             HHHHHhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204          354 IEEEMVKGTFVPTVRVYNILLKGLCDAGNS  383 (504)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (504)
                      +++ |+..|+.||..+-..+++++.+.+-+
T Consensus       146 Leq-ME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  146 LEQ-MEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHH-HHHcCCCCchHHHHHHHHHhcccccc
Confidence            887 88888888888888888888776644

>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=95.41  E-value=0.75  Score=35.46  Aligned_cols=53  Identities=6%  Similarity=0.063  Sum_probs=30.6

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcC
Q 043204           19 KKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGD   74 (504)
Q Consensus        19 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (504)
                      .+.++.+++..+++-+.-..|+ .+...++..  ..+...|++.+|..+|+.+...
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~-~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPE-FPELDLFDG--WLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCC-chHHHHHHH--HHHHHhCCHHHHHHHHHHHhcc
Confidence            3456677777777766665554 122233333  3345667777777777776554

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.40  E-value=0.015  Score=31.48  Aligned_cols=32  Identities=25%  Similarity=0.396  Sum_probs=23.9

Q ss_pred             HHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHH
Q 043204           31 FKEAKEKYPNYRHNGPVYASMIGILSESNRITEMK   65 (504)
Q Consensus        31 ~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~   65 (504)
                      |+++.+.+|+   +..+|+.+...|...|++++|+
T Consensus         2 y~kAie~~P~---n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN---NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC---CHHHHHHHHHHHHHCcCHHhhc
Confidence            5666677776   7778888888888888877775

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.39  E-value=0.38  Score=40.50  Aligned_cols=13  Identities=8%  Similarity=0.258  Sum_probs=5.1

Q ss_pred             hhHHHHHHHHHHH
Q 043204          312 IVEGDKVLDEMRT  324 (504)
Q Consensus       312 ~~~a~~~~~~~~~  324 (504)
                      +..|..-|...++
T Consensus       157 y~~A~~~F~~fi~  169 (262)
T COG1729         157 YAEAEQAFQAFIK  169 (262)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444443333333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.37  E-value=1.4  Score=36.92  Aligned_cols=59  Identities=12%  Similarity=0.057  Sum_probs=32.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          373 LLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       373 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      +.+.|.+.|.+..|..-+++|.+.+.-.+- ...+-.+..+|.+.|-.++|.+.-.-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            445566667776666666666664222111 12344455666666666666665444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.34  E-value=0.034  Score=32.31  Aligned_cols=39  Identities=3%  Similarity=0.045  Sum_probs=22.7

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      ++..+...|.+.|++++|.++|+++.+.. |.|...+..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHh
Confidence            35556666666666666666666666654 4444444433

>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=95.24  E-value=0.16  Score=40.58  Aligned_cols=100  Identities=11%  Similarity=0.065  Sum_probs=67.8

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH--HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGDSCECKD--SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ..+..+...|.+.|+.+.|.+.|.++......+..  ..+..+|+...-.+++..+.....+....-..........-+.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            46778889999999999999999998876544443  4478888888888998888888776654322211111111111


Q ss_pred             -----HHHhcchHHHHHHHHHHhhcCC
Q 043204          124 -----EMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus       124 -----~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                           .+...+++..|-+.|-......
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~t~  143 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLSTF  143 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCcCC
Confidence                 2334688988888887776543

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.24  E-value=1.1  Score=34.88  Aligned_cols=64  Identities=16%  Similarity=0.275  Sum_probs=31.5

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          186 RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIV-IYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       186 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ...|...+. +++.+..++|+.-|..+    .+.|..--.. ..........+.|+...|...|+++-..
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~l----ektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d  123 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDL----EKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD  123 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHH----HhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc
Confidence            344544444 45566666666666666    4444331111 1111223344556666666666665543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.13  E-value=0.99  Score=34.10  Aligned_cols=59  Identities=17%  Similarity=0.075  Sum_probs=27.6

Q ss_pred             HhcCChhHHHHHHHHhhhCCCCc--cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVN--WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS  149 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (504)
                      .+.|++++|.+.|+.+..+-+..  ...+-..|+.+|.+.+++++|...+++...-.+.+|
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp   81 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP   81 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence            34456666666666555432111  112333444455555555555555555544433333

>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=95.04  E-value=0.79  Score=36.70  Aligned_cols=97  Identities=10%  Similarity=0.050  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCcc--HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch------HH
Q 043204           81 SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNW--TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR------IQ  152 (504)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~  152 (504)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+.....+.........|      ..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            3478889999999999999999999988655443  356778899999999999988888776543222112      22


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhh
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDF  179 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  179 (504)
                      +|..|.  +...+++..|-+.|-....
T Consensus       117 ~~~gL~--~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLA--NLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHH--HHHhchHHHHHHHHHccCc
Confidence            233332  3456899999988877654

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.

>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=94.88  E-value=1.4  Score=34.12  Aligned_cols=19  Identities=26%  Similarity=0.272  Sum_probs=9.5

Q ss_pred             HhhcCcHHHHHHHHHHHHh
Q 043204          413 LCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~  431 (504)
                      +...|++.+|.++|+++.+
T Consensus        54 ~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhc
Confidence            4444555555555555444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.71  E-value=0.62  Score=37.63  Aligned_cols=182  Identities=14%  Similarity=0.029  Sum_probs=98.7

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHH-HHHHHHHHHhcCCh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSV-FATAIRTYARAGQL   96 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~   96 (504)
                      |-..|-+.-|.-=|.+.+...|.   -+.+||.|.-.+...|+++.|.+.|+...+.+ +....+ .|.-|..| -.|++
T Consensus        75 YDSlGL~~LAR~DftQaLai~P~---m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD-p~y~Ya~lNRgi~~Y-Y~gR~  149 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIRPD---MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY-YGGRY  149 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcCCC---cHHHHHHHHHHHHhcccchHHHHHhhhHhccC-CcchHHHhccceeee-ecCch
Confidence            44556666666677777777665   56778888888888999999999999998887 333333 34434333 45788


Q ss_pred             hHHHHHHHHhhhCCCC-ccHHHHHHHHHHHHhcchHHHHHHH-HHHhhcCCCCcchHHHHHHHHH-HHhhcCCHHHHHHH
Q 043204           97 NEAVSLFKNLSQFNCV-NWTQSFNTLLKEMVKESKLEAAHIL-FLRSCYGWEVKSRIQSLNLLMD-VLCQCRRSDLALHV  173 (504)
Q Consensus        97 ~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~  173 (504)
                      +-|.+-|...-+.+.. |-...|.-+..   ..-+..+|..- .++....     |..-|...|. .|.-.=..+.+.+-
T Consensus       150 ~LAq~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~~-----d~e~WG~~iV~~yLgkiS~e~l~~~  221 (297)
T COG4785         150 KLAQDDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEKS-----DKEQWGWNIVEFYLGKISEETLMER  221 (297)
T ss_pred             HhhHHHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHhc-----cHhhhhHHHHHHHHhhccHHHHHHH
Confidence            8887777666555432 22222222221   22334444433 3333211     2222222222 22211112222222


Q ss_pred             HHHhhhCCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          174 FQEMDFQGC---YPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       174 ~~~~~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ...-...+-   +.=..||--|.+.+...|+.++|..+|+-.
T Consensus       222 ~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLa  263 (297)
T COG4785         222 LKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLA  263 (297)
T ss_pred             HHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            111111100   112357778888888888888888888877

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.55  E-value=1.6  Score=35.44  Aligned_cols=182  Identities=12%  Similarity=-0.008  Sum_probs=101.4

Q ss_pred             HHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           64 MKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      |.--|.+..... |.-+.+||-+.--+...|+++.|.+.|+...+.++.-+-...|.-| ++.-.|++.-|.+-|.+.-.
T Consensus        84 AR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          84 ARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHh
Confidence            333344444333 4445679999888999999999999999999887544322222222 23346888888887777665


Q ss_pred             CCCCcchHHHHHHHHHHHhhcCCHHHHHHHH-HHhhhCCCCCCHhhHHHHHHHHH-hcCCHHHHHHHHHHHHHHHhhCCC
Q 043204          144 GWEVKSRIQSLNLLMDVLCQCRRSDLALHVF-QEMDFQGCYPDRESYHILMKGLC-NDRRLNEATHLLYSMFWRISQKGS  221 (504)
Q Consensus       144 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~p~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~  221 (504)
                      ..+-.|--..|--+.   -..-++.+|..-+ ++...    .|..-|...|-.+. ..=..+.+.+-...--+. ...--
T Consensus       162 ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~-n~~~A  233 (297)
T COG4785         162 DDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYLGKISEETLMERLKADATD-NTSLA  233 (297)
T ss_pred             cCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHHhhccHHHHHHHHHhhccc-hHHHH
Confidence            544444333332222   2334666666544 33332    24344443333221 111111111111000000 00000


Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 043204          222 GEDIVIYRTLLFALCDQGKIQDAMQILEKILRKG  255 (504)
Q Consensus       222 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  255 (504)
                      +.=..||--+..-+...|+.++|..+|+-.+..+
T Consensus       234 e~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         234 EHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            1135688899999999999999999999988764

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.48  E-value=0.49  Score=40.53  Aligned_cols=79  Identities=15%  Similarity=0.156  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh-----cCcCCCcchH
Q 043204          367 VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI-----RSYWPCVETY  441 (504)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~  441 (504)
                      ..++..++..+...|+.+.+...++++...  -+-+...|..++.+|.+.|+...|...|+.+.+     .|+.|...+.
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            445666666666677777777777776653  233556667777777777777777777666654     2555555554


Q ss_pred             HHHHHH
Q 043204          442 NVLIRG  447 (504)
Q Consensus       442 ~~l~~~  447 (504)
                      ..+...
T Consensus       231 ~~y~~~  236 (280)
T COG3629         231 ALYEEI  236 (280)
T ss_pred             HHHHHH
Confidence            444433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.44  E-value=5.5  Score=39.13  Aligned_cols=156  Identities=14%  Similarity=0.065  Sum_probs=91.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      -+..+.+.+.+++|+..-+......|... -...+...|+.+...|++++|-...-.|..    .+..-|..-+..+...
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~~~~~~-i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g----n~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGNEERFV-IKKVGKTYIDHLLFEGKYDEAASLCPKMLG----NNAAEWELWVFKFAEL  436 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCCccccc-hHHHHHHHHHHHHhcchHHHHHhhhHHHhc----chHHHHHHHHHHhccc
Confidence            36778888899999987765544322211 344678889999999999999998888874    3566677777777776


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc--------CCCCcc-------hHHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY--------GWEVKS-------RIQSLNLLM  158 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--------~~~~~~-------~~~~~~~l~  158 (504)
                      ++....   +.-+.......+...|..++-.+.. .+...-.++...-..        ....+|       +...-..|+
T Consensus       437 ~~l~~I---a~~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La  512 (846)
T KOG2066|consen  437 DQLTDI---APYLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLA  512 (846)
T ss_pred             cccchh---hccCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHH
Confidence            655443   3334444444556677777776665 322222222211100        000000       112223466


Q ss_pred             HHHhhcCCHHHHHHHHHHhh
Q 043204          159 DVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus       159 ~~~~~~~~~~~a~~~~~~~~  178 (504)
                      ..|...++++.|..++-...
T Consensus       513 ~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  513 HLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHccChHHHHHHHHhcc
Confidence            66777777777777766655

>PRK11906 transcriptional regulator; Provisional

Probab=94.36  E-value=1  Score=41.38  Aligned_cols=114  Identities=15%  Similarity=0.087  Sum_probs=84.4

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHH
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSL  102 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (504)
                      +..+|.++-+++.+.+|.   |..+...+..++.-.++++.|..+|++....+ |....+|....-.+.-.|+.++|.+.
T Consensus       319 ~~~~a~~~A~rAveld~~---Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~  394 (458)
T PRK11906        319 AAQKALELLDYVSDITTV---DGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARIC  394 (458)
T ss_pred             HHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            456788899999999887   88888888888888889999999999999887 55566777777777888999999999


Q ss_pred             HHHhhhCCCCcc-HHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204          103 FKNLSQFNCVNW-TQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus       103 ~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      +++..+.++.-- ..+....++.|+. ..++.|.++|-+-
T Consensus       395 i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  433 (458)
T PRK11906        395 IDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNIKLYYKE  433 (458)
T ss_pred             HHHHhccCchhhHHHHHHHHHHHHcC-CchhhhHHHHhhc
Confidence            999766653221 2222222334433 4567777766543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.34  E-value=0.45  Score=40.76  Aligned_cols=70  Identities=10%  Similarity=0.198  Sum_probs=45.0

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh-----CCCCccHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ-----FNCVNWTQSF  118 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  118 (504)
                      +..++..+...|+.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+.
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            4445556666667777777777777666 66666677777777777777777777766543     4555554433

>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=93.99  E-value=0.0044  Score=47.90  Aligned_cols=85  Identities=15%  Similarity=0.224  Sum_probs=48.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES  129 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  129 (504)
                      .++..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++....  ..+     ..++..+.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~--yd~-----~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN--YDL-----DKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS--S-C-----THHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc--cCH-----HHHHHHHHhcc
Confidence            34556666666777777777766555345566667777777776666666666652211  122     35555666666


Q ss_pred             hHHHHHHHHHHh
Q 043204          130 KLEAAHILFLRS  141 (504)
Q Consensus       130 ~~~~a~~~~~~~  141 (504)
                      -+++|.-++.++
T Consensus        85 l~~~a~~Ly~~~   96 (143)
T PF00637_consen   85 LYEEAVYLYSKL   96 (143)
T ss_dssp             SHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHc
Confidence            666665555544

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.78  E-value=6.4  Score=37.44  Aligned_cols=132  Identities=8%  Similarity=-0.006  Sum_probs=88.3

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      ..|..|+.--....+.+.+..+++.++..+|-   --.-|......=.+.|..+.+.++|++.... ++.....|.....
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl---~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSKYPL---CYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLA  121 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhhCcc---HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHH
Confidence            34555655555555667778888888887663   2334566666667778888999999888764 3666667766665


Q ss_pred             HHH-hcCChhHHHHHHHHhhhCC-C-CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           89 TYA-RAGQLNEAVSLFKNLSQFN-C-VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        89 ~~~-~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      .+. ..|+.+.....|+...... . -.+...|...|..-...+++.....+++++.+.
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            544 4567777778888766421 1 122345667777777778888888888887654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.66  E-value=3.8  Score=34.47  Aligned_cols=222  Identities=21%  Similarity=0.092  Sum_probs=94.7

Q ss_pred             cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCChhHHH
Q 043204          238 QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR-GGIPSLASYSAMAIDLYNEGRIVEGD  316 (504)
Q Consensus       238 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~  316 (504)
                      .+....+...+......................+...++...+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34555555665555554322111233333344444455555555555544432 11122333333344444445555555


Q ss_pred             HHHHHHHHCCCCcchhhHHHHHH-HHhcCCCHHHHHHHHHHHHhcCCC--CccHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 043204          317 KVLDEMRTKGFWPSLVMYEAKLA-ALFKDGMVDEALEVIEEEMVKGTF--VPTVRVYNILLKGLCDAGNSAVAVMYLKKM  393 (504)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  393 (504)
                      ..+.........+ ......... .+...|+++.+...+.+... ...  ......+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            5555555433221 111111222 45555555555555555322 110  012222222233344455555555555555


Q ss_pred             HHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          394 SKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       394 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      ...  ... ....+..+...+...++++.|...+.......  |+ ...+..+...+...|..+.+...+.+..
T Consensus       194 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         194 LKL--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             Hhh--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            542  111 23444445555555555555555555555432  22 2223333333334444555555555554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.62  E-value=0.18  Score=27.63  Aligned_cols=26  Identities=23%  Similarity=0.218  Sum_probs=19.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          440 TYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       440 ~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      +|..|...|.+.|++++|++++++.+
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            36677888888888888888888855

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.46  E-value=2.6  Score=32.02  Aligned_cols=20  Identities=40%  Similarity=0.629  Sum_probs=10.5

Q ss_pred             HhhcCcHHHHHHHHHHHHhc
Q 043204          413 LCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~~  432 (504)
                      +...|++.+|.++|++..+.
T Consensus        54 ~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        54 LIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhcc
Confidence            44455555555555555543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.44  E-value=5.1  Score=35.27  Aligned_cols=130  Identities=12%  Similarity=0.175  Sum_probs=72.1

Q ss_pred             hHHHHHHHHhhcCCCCccHHHHHHHHHHHHh--cC----ChhHHHHHHHHhhhCCCC---ccHHHHHHHHHHHHhcchH-
Q 043204           62 TEMKEVIDQMKGDSCECKDSVFATAIRTYAR--AG----QLNEAVSLFKNLSQFNCV---NWTQSFNTLLKEMVKESKL-  131 (504)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~ll~~~~~~~~~-  131 (504)
                      ++...+++.|.+.|+.-+..+|.+..-....  ..    ....|..+|+.|++..+-   ++...+..++..  ..+++ 
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4556777888888888777776554433333  22    345688888888876532   223344444433  23332 


Q ss_pred             ---HHHHHHHHHhhcCCCCcc--hHHHHHHHHHHHhhcCC--HHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043204          132 ---EAAHILFLRSCYGWEVKS--RIQSLNLLMDVLCQCRR--SDLALHVFQEMDFQGCYPDRESYHILMK  194 (504)
Q Consensus       132 ---~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~  194 (504)
                         +.++.+|+.+... +...  +......++.......+  ..++.++++.+.+.|+++....|..+.-
T Consensus       157 ~l~~~~E~~Y~~L~~~-~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  157 ELAERMEQCYQKLADA-GFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHh-CCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence               4556666666652 2222  22333333333222222  3467778888888888777766665543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.16  E-value=5.6  Score=34.99  Aligned_cols=59  Identities=19%  Similarity=0.242  Sum_probs=35.9

Q ss_pred             HhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh--cC----chhHHHHHHHHHHHcC
Q 043204          197 CNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD--QG----KIQDAMQILEKILRKG  255 (504)
Q Consensus       197 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g----~~~~a~~~~~~~~~~~  255 (504)
                      .+..+++++.+-+-.....+.+.|...+..+|-+.......  ..    ...+|..+|+.|.+..
T Consensus        69 ~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   69 ISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            34444666665555555555888888887766653333322  22    2467788888888764

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.97  E-value=9.8  Score=37.22  Aligned_cols=186  Identities=12%  Similarity=0.001  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHhhcCCCCcchHHHHHHHHHH-HhhcCCHHHHHHHHHHhhh-------CCCCCCHhhHHHHHHHHHhcC--
Q 043204          131 LEAAHILFLRSCYGWEVKSRIQSLNLLMDV-LCQCRRSDLALHVFQEMDF-------QGCYPDRESYHILMKGLCNDR--  200 (504)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~-------~~~~p~~~~~~~l~~~~~~~~--  200 (504)
                      ...|..+++.........+-...-.....+ +....|.+.|..+|+.+.+       .|   +.....-+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            456677776665543222211111111222 4456678888888877765       44   3334555555555532  


Q ss_pred             ---CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh-cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCC
Q 043204          201 ---RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD-QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGED  276 (504)
Q Consensus       201 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  276 (504)
                         +.+.|..++.+.    ...|.. +....-..+.-... ..+...|.++|....+.|..+..............-..+
T Consensus       305 ~~~d~~~A~~~~~~a----A~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKA----AELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERN  379 (552)
T ss_pred             ccccHHHHHHHHHHH----HhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCC
Confidence               556677777666    444432 33222222221111 134567777777777666432211111111122233445


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          277 IEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       277 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      ...|..+++...+.| .|....-...+..+.. ++.+.+...+..+.+.|
T Consensus       380 ~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            566666666666555 2221211222222222 45555555554444443

>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=92.88  E-value=0.0082  Score=46.37  Aligned_cols=85  Identities=7%  Similarity=0.066  Sum_probs=59.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHH
Q 043204          156 LLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFAL  235 (504)
Q Consensus       156 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  235 (504)
                      .++..+.+.+.++....+++.+...+...+....+.++..|++.++.++...+++..      ..     .-...++..|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~------~~-----yd~~~~~~~c   80 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS------NN-----YDLDKALRLC   80 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS------SS-----S-CTHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc------cc-----cCHHHHHHHH
Confidence            366777788888888888888887665567788888899999888777777765422      11     2334566777


Q ss_pred             HhcCchhHHHHHHHHH
Q 043204          236 CDQGKIQDAMQILEKI  251 (504)
Q Consensus       236 ~~~g~~~~a~~~~~~~  251 (504)
                      .+.|.++.+.-++..+
T Consensus        81 ~~~~l~~~a~~Ly~~~   96 (143)
T PF00637_consen   81 EKHGLYEEAVYLYSKL   96 (143)
T ss_dssp             HTTTSHHHHHHHHHCC
T ss_pred             HhcchHHHHHHHHHHc
Confidence            7778888887777764

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.

>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=92.79  E-value=3  Score=30.87  Aligned_cols=140  Identities=10%  Similarity=0.183  Sum_probs=73.0

Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      .-.|..++..++..+.....   +..-+|-+|--....-+-+-..++++.+-.-.++.              .+|+....
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHHH
Confidence            34566777777776665432   12333444444444445555555555554332221              22333333


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEK  250 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  250 (504)
                      ...+-.+-     .+.......+......|+-++-.+++..+    .+ .-.+++...-.+..+|.+.|+..++.+++.+
T Consensus        76 i~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l----~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   76 IECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNEL----KK-NEEINPEFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             HHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH----------S-HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHH----hh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            33333222     13344555667777788888777777776    32 3455677777788888888888888888888


Q ss_pred             HHHcCCC
Q 043204          251 ILRKGLK  257 (504)
Q Consensus       251 ~~~~~~~  257 (504)
                      ..+.|++
T Consensus       146 ACekG~k  152 (161)
T PF09205_consen  146 ACEKGLK  152 (161)
T ss_dssp             HHHTT-H
T ss_pred             HHHhchH
Confidence            8877753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.77  E-value=6.3  Score=34.51  Aligned_cols=169  Identities=12%  Similarity=-0.014  Sum_probs=115.9

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCC--cchHHHHHHHHHHHhhcCCH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEV--KSRIQSLNLLMDVLCQCRRS  167 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  167 (504)
                      ....|+..+|-..++++.+. .+.|..++..-=+++.-.|+.+.-...++++....+.  +-.+.......-++..+|-+
T Consensus       113 ~~~~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  113 LWGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hhccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            34568888888888888874 3556667777778888999999988888888765322  22233334445566788999


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHH
Q 043204          168 DLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQI  247 (504)
Q Consensus       168 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  247 (504)
                      ++|++.-++..+-+ +.|...-.++...+-..|++.++.++..+-...-. .+.-.-..-|-...-.+...+.++.|+++
T Consensus       192 ~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr-~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  192 DDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWR-QSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchh-hhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            99999999988765 34667777788888889999999988765421112 22222233444455567788999999999


Q ss_pred             HHHHHHcCCCCCcc
Q 043204          248 LEKILRKGLKAPKS  261 (504)
Q Consensus       248 ~~~~~~~~~~~~~~  261 (504)
                      |+.-+-.....++.
T Consensus       270 yD~ei~k~l~k~Da  283 (491)
T KOG2610|consen  270 YDREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHHhhccch
Confidence            98754444443444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.63  E-value=5.6  Score=33.58  Aligned_cols=201  Identities=11%  Similarity=0.128  Sum_probs=126.0

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCc--chhcHHHHHHHHhccCChhHHHHHHHHhhcC---CC--CccHHHHHHHHHHHHhc
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRH--NGPVYASMIGILSESNRITEMKEVIDQMKGD---SC--ECKDSVFATAIRTYARA   93 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~   93 (504)
                      ..++++|+.-|++.++..|. +.  ...+.-.++....+.+++++..+.+.++...   .+  .-+....|+++......
T Consensus        40 e~~p~~Al~sF~kVlelEgE-KgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGE-KGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccc-cchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            44899999999999987431 11  1234567788899999999999888887631   11  12334567777666665


Q ss_pred             CChhHHHHHHHHhh----h-CCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC---CCCcch-------HHHHHHHH
Q 043204           94 GQLNEAVSLFKNLS----Q-FNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG---WEVKSR-------IQSLNLLM  158 (504)
Q Consensus        94 ~~~~~a~~~~~~~~----~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-------~~~~~~l~  158 (504)
                      .+.+...+.|+.-.    + .+-..+-.|-..|...|...+++.+..++++++...   ..-..|       ...|..=|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            66555555554322    1 233445555578888888888888888888776431   111111       34567777


Q ss_pred             HHHhhcCCHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHH-----HhcCCHHHHHHHHHHHHHHHhhCCCCc
Q 043204          159 DVLCQCRRSDLALHVFQEMDFQ-GCYPDRESYHILMKGL-----CNDRRLNEATHLLYSMFWRISQKGSGE  223 (504)
Q Consensus       159 ~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~~~~~~~~  223 (504)
                      ..|....+-.+...++++...- .--|.+.... +|+-|     .+.|++++|..-|-+.+....+.|.+.
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspR  268 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPR  268 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcc
Confidence            8888888878888888876542 1234443333 44444     467888888777666665545555443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.61  E-value=5.5  Score=33.43  Aligned_cols=166  Identities=14%  Similarity=-0.009  Sum_probs=74.5

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcC-CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH-
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGD-SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK-  123 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~-  123 (504)
                      ..+......+...+++..+...+...... ........+......+...+++..+...+.........+. ........ 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHH
Confidence            44445555555555555555555555431 1133334445555555555555566666655554332221 11111122 


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCC-cchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEV-KSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      .+...|+++.|...+.+....... ......+......+...++.+.+...+..............+..+...+...+++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            455555555555555555321100 1112222222233444555555555555555431110234444444445555555


Q ss_pred             HHHHHHHHHH
Q 043204          203 NEATHLLYSM  212 (504)
Q Consensus       203 ~~a~~~~~~~  212 (504)
                      +.+...+...
T Consensus       219 ~~a~~~~~~~  228 (291)
T COG0457         219 EEALEYYEKA  228 (291)
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.48  E-value=0.35  Score=26.46  Aligned_cols=26  Identities=23%  Similarity=0.255  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          227 IYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       227 ~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      +|..|...|.+.|++++|+++|++.+
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            36677888888888888888888754

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=92.07  E-value=10  Score=35.39  Aligned_cols=176  Identities=7%  Similarity=-0.042  Sum_probs=119.2

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      .-.++..+..+..++-...+..+++.-.    -+...|..++.+|.+. ..+.-..+++++.+.. -.|+..-..|...|
T Consensus        69 l~~~~~~f~~n~k~~~veh~c~~~l~~~----e~kmal~el~q~y~en-~n~~l~~lWer~ve~d-fnDvv~~ReLa~~y  142 (711)
T COG1747          69 LVTLLTIFGDNHKNQIVEHLCTRVLEYG----ESKMALLELLQCYKEN-GNEQLYSLWERLVEYD-FNDVVIGRELADKY  142 (711)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHHhc----chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc-chhHHHHHHHHHHH
Confidence            4456777888888888888888888753    2677888999999888 5677888899888876 33444445555555


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCcc-----HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNW-----TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      -+ ++-+.+...|..+..+-++..     ...|..+...  -..+.+....+..++....+..--...+.-+-.-|....
T Consensus       143 Ek-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~e  219 (711)
T COG1747         143 EK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENE  219 (711)
T ss_pred             HH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcccc
Confidence            44 888888888887765433211     1123332221  135667777777777766666555666777778899999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGL  196 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  196 (504)
                      ++++|++++..+.+.+- .|...-..++.-+
T Consensus       220 N~~eai~Ilk~il~~d~-k~~~ar~~~i~~l  249 (711)
T COG1747         220 NWTEAIRILKHILEHDE-KDVWARKEIIENL  249 (711)
T ss_pred             CHHHHHHHHHHHhhhcc-hhhhHHHHHHHHH
Confidence            99999999998887652 3555555555543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.01  E-value=3.8  Score=38.86  Aligned_cols=131  Identities=14%  Similarity=0.066  Sum_probs=76.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHh
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLC  162 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  162 (504)
                      .+.+++.+.++|..++|+++-       ..|+     .-.....+.|+++.|.++..+..       +..-|..|.++..
T Consensus       617 rt~va~Fle~~g~~e~AL~~s-------~D~d-----~rFelal~lgrl~iA~~la~e~~-------s~~Kw~~Lg~~al  677 (794)
T KOG0276|consen  617 RTKVAHFLESQGMKEQALELS-------TDPD-----QRFELALKLGRLDIAFDLAVEAN-------SEVKWRQLGDAAL  677 (794)
T ss_pred             hhhHHhHhhhccchHhhhhcC-------CChh-----hhhhhhhhcCcHHHHHHHHHhhc-------chHHHHHHHHHHh
Confidence            455556666666666665441       1121     22344456677777777665543       3456777777777


Q ss_pred             hcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchh
Q 043204          163 QCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ  242 (504)
Q Consensus       163 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  242 (504)
                      ..+++..|.+.|.+...         |..|+-.+...|+.+....+-...    .+.|.      .|...-+|...|+++
T Consensus       678 ~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~----~~~g~------~N~AF~~~~l~g~~~  738 (794)
T KOG0276|consen  678 SAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLA----KKQGK------NNLAFLAYFLSGDYE  738 (794)
T ss_pred             hcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHH----Hhhcc------cchHHHHHHHcCCHH
Confidence            77777777777766553         445666666666665544444433    33332      233344566677777


Q ss_pred             HHHHHHHHH
Q 043204          243 DAMQILEKI  251 (504)
Q Consensus       243 ~a~~~~~~~  251 (504)
                      ++.+++..-
T Consensus       739 ~C~~lLi~t  747 (794)
T KOG0276|consen  739 ECLELLIST  747 (794)
T ss_pred             HHHHHHHhc
Confidence            777776543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.97  E-value=5  Score=31.53  Aligned_cols=128  Identities=13%  Similarity=0.125  Sum_probs=62.0

Q ss_pred             HHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc--hHHHHHHHHHHhhc
Q 043204           66 EVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES--KLEAAHILFLRSCY  143 (504)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~  143 (504)
                      +.++.+.+.+++|+...+..+++.+.+.|.+.....+    .+.++.+|.......+-.+....  -..-+..++.++..
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~   90 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGT   90 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhh
Confidence            4455555666677777777777777777765444333    34455555443333332222111  12233334433321


Q ss_pred             CCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          144 GWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       144 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                               .+..++..+...|++-+|.++.+.....    +......++.+..+.+|...-..+++
T Consensus        91 ---------~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~  144 (167)
T PF07035_consen   91 ---------AYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFR  144 (167)
T ss_pred             ---------hHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHH
Confidence                     2244556666667777777666654321    11222334444444444443333333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.90  E-value=0.16  Score=27.40  Aligned_cols=31  Identities=13%  Similarity=0.220  Sum_probs=19.5

Q ss_pred             HHhhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 043204           69 DQMKGDSCECKDSVFATAIRTYARAGQLNEAV  100 (504)
Q Consensus        69 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (504)
                      ++.++.. |-+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444444 556666777777777777777664

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=91.74  E-value=11  Score=35.08  Aligned_cols=73  Identities=15%  Similarity=0.024  Sum_probs=45.0

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHH-hccCChhHHHHHHHHhhcCCCCccHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGIL-SESNRITEMKEVIDQMKGDSCECKDSVF   83 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (504)
                      |+..|..-+..+.+.+.+.+.-.+|..|+..+|.   ++..|-.-..-. -.+.+++.|..+|.+..+.. +.++..|
T Consensus       104 D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~---~~dLWI~aA~wefe~n~ni~saRalflrgLR~n-pdsp~Lw  177 (568)
T KOG2396|consen  104 DVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPN---NPDLWIYAAKWEFEINLNIESARALFLRGLRFN-PDSPKLW  177 (568)
T ss_pred             CHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCC---CchhHHhhhhhHHhhccchHHHHHHHHHHhhcC-CCChHHH
Confidence            5555666666666666678888888888888765   444443333222 23334778888887777665 4444444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.73  E-value=15  Score=36.50  Aligned_cols=42  Identities=19%  Similarity=0.251  Sum_probs=21.8

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      ++|-.|.|+|++++|.++.......- ......+...+..|..
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~~-~~~~~~f~~~l~~~~~  157 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQF-QKIERSFPTYLKAYAS  157 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGGS--TTTTHHHHHHHHCTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhhh-cchhHHHHHHHHHHHh
Confidence            55666667777777776664443322 3333445555555544

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.72  E-value=0.4  Score=25.70  Aligned_cols=31  Identities=19%  Similarity=0.115  Sum_probs=24.6

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPN   40 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~   40 (504)
                      +|..+...+...|++++|+..|+++++.+|+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            4667788888999999999999999888653

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.68  E-value=0.23  Score=26.35  Aligned_cols=28  Identities=21%  Similarity=0.329  Sum_probs=23.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPN   40 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~   40 (504)
                      .+..++.+.|++++|.+.|+++.+.+|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            3567788899999999999999998875

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.24  E-value=11  Score=34.05  Aligned_cols=63  Identities=11%  Similarity=0.041  Sum_probs=35.1

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhc
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKG   73 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (504)
                      +.-+...|..+|+++.|++.|.++..-=-..+.....|-.+|..-...|+|........+..+
T Consensus       153 ~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~s  215 (466)
T KOG0686|consen  153 LEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAES  215 (466)
T ss_pred             HHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHh
Confidence            344566667777777777777664331111222344455666666666666666555555443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.13  E-value=3.9  Score=28.65  Aligned_cols=47  Identities=13%  Similarity=0.038  Sum_probs=25.3

Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      +..+-++.+...++.|++.+..+.+++|.+.+++..|.++|+.+..+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455555555566666666666666666666666666666655544

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 ....

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.09  E-value=8.2  Score=32.25  Aligned_cols=94  Identities=16%  Similarity=0.114  Sum_probs=52.3

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHhhhC----CCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          154 LNLLMDVLCQCRRSDLALHVFQEMDFQ----GCYPDR-ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       154 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      +...-+.+.+...+++|-..|.+-...    .-.++. ..|...|-.+....++..|...++.-... ....-.-+..+.
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qi-p~f~~sed~r~l  231 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQI-PAFLKSEDSRSL  231 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcC-ccccChHHHHHH
Confidence            344445566666666665555433211    111222 33555566677778899999988764100 111122356677


Q ss_pred             HHHHHHHHhcCchhHHHHHHH
Q 043204          229 RTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      ..|+.+|- .||.+++.+++.
T Consensus       232 enLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  232 ENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHhc-cCCHHHHHHHHc
Confidence            78888774 467776666553

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.04  E-value=17  Score=35.70  Aligned_cols=176  Identities=14%  Similarity=0.046  Sum_probs=98.9

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHH-----HhccCChhHHHHHHHHhhc-------CCCCccHHHHHHHHHHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGI-----LSESNRITEMKEVIDQMKG-------DSCECKDSVFATAIRTYA   91 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~   91 (504)
                      ...|..+++.....  |   +......+..+     +...++.+.|..+|+...+       .+   ++....-+..+|.
T Consensus       228 ~~~a~~~~~~~a~~--g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~  299 (552)
T KOG1550|consen  228 LSEAFKYYREAAKL--G---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYL  299 (552)
T ss_pred             hhHHHHHHHHHHhh--c---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHh
Confidence            46788888888877  4   55544444433     3355788899999988876       44   3334556666666


Q ss_pred             hcC-----ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh-cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHH--hh
Q 043204           92 RAG-----QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK-ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVL--CQ  163 (504)
Q Consensus        92 ~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~  163 (504)
                      +..     +.+.|..+|...-+.|.+ +...+...+..... ..+...|.++|....... . ++..-+-+++-..  .-
T Consensus       300 ~g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G-~-~~A~~~la~~y~~G~gv  376 (552)
T KOG1550|consen  300 QGLGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAG-H-ILAIYRLALCYELGLGV  376 (552)
T ss_pred             cCCCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcC-C-hHHHHHHHHHHHhCCCc
Confidence            643     566788888887777743 33322222222222 245678888888776542 1 1222221111111  12


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          164 CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       164 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ..+.+.|..++.+..+.| .|....-...+..+.. +.++.+.-.+..+
T Consensus       377 ~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~  423 (552)
T KOG1550|consen  377 ERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYL  423 (552)
T ss_pred             CCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHH
Confidence            347778888888888776 3332222223333344 6666665555554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.98  E-value=0.51  Score=25.15  Aligned_cols=30  Identities=30%  Similarity=0.264  Sum_probs=23.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPN   40 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~   40 (504)
                      +..+...+...|++++|++.|+++.+..|+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            456777888899999999999998887664

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 ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.91  E-value=3.6  Score=32.93  Aligned_cols=129  Identities=6%  Similarity=0.006  Sum_probs=87.9

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHH----HHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDS----VFATA   86 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l   86 (504)
                      |..++.... .+.+ +.....+.+...+|.-.--...-..+...+...|++++|..-++......  .|..    +-..|
T Consensus        57 Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t--~De~lk~l~~lRL  132 (207)
T COG2976          57 YQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQT--KDENLKALAALRL  132 (207)
T ss_pred             HHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccc--hhHHHHHHHHHHH
Confidence            444555444 3444 66667777777765522222233455578899999999999999887542  2222    23445


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      .+.....|.++.|+.+++.....+..+-  ....-.+.+...|+-++|..-|+......
T Consensus       133 Arvq~q~~k~D~AL~~L~t~~~~~w~~~--~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         133 ARVQLQQKKADAALKTLDTIKEESWAAI--VAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHhhhHHHHHHHHhccccccHHHH--HHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            6777889999999999998877664432  23445678899999999999999988764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.90  E-value=2.1  Score=29.61  Aligned_cols=48  Identities=17%  Similarity=0.245  Sum_probs=32.7

Q ss_pred             ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhh
Q 043204           60 RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (504)
                      +.-++.+-+..+...++.|++.+..+.+++|.+.+|+..|.++|+-++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334556666666666667777777777777777777777777777665

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.65  E-value=9  Score=32.00  Aligned_cols=26  Identities=4%  Similarity=-0.019  Sum_probs=16.4

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      .|.--..+|....++++|...+.+..
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~   58 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKAS   58 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            34444556666777777777666655

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.57  E-value=2.2  Score=29.52  Aligned_cols=50  Identities=12%  Similarity=-0.003  Sum_probs=39.9

Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      |.-++.+-++.+...+..|++.+..+.+++|-+.+++..|.++|+..+.+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34456677777778888888888888888888888888888888877644

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.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=90.56  E-value=12  Score=33.48  Aligned_cols=92  Identities=7%  Similarity=0.038  Sum_probs=57.6

Q ss_pred             HHHHHHhcCCCCCcchhcHHHHHHHHhcc---CC---------hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh
Q 043204           30 IFKEAKEKYPNYRHNGPVYASMIGILSES---NR---------ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        30 ~~~~~~~~~p~~~~~~~~~~~l~~~~~~~---~~---------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      -|++..+.+|+   |+.+|-.++..--..   +.         .+.-+.++++..+.+ +.+...+...+..+.+..+.+
T Consensus         7 el~~~v~~~P~---di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~   82 (321)
T PF08424_consen    7 ELNRRVRENPH---DIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSE   82 (321)
T ss_pred             HHHHHHHhCcc---cHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHH
Confidence            45566666777   888888888533221   11         345566677777665 556666777777777777777


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      ...+.++.+...... +...|...|+...
T Consensus        83 ~l~~~we~~l~~~~~-~~~LW~~yL~~~q  110 (321)
T PF08424_consen   83 KLAKKWEELLFKNPG-SPELWREYLDFRQ  110 (321)
T ss_pred             HHHHHHHHHHHHCCC-ChHHHHHHHHHHH
Confidence            777777777765422 3445555555443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.39  E-value=2.2  Score=29.85  Aligned_cols=63  Identities=14%  Similarity=0.215  Sum_probs=44.6

Q ss_pred             ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           60 RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +.-+..+-+..+...++.|++.+..+.+++|.+.+++..|.++|+-++..-- +....|..++.
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~-~~~~~Y~~~lq   87 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG-NKKEIYPYILQ   87 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT-T-TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc-ChHHHHHHHHH
Confidence            3347777888888888899999999999999999999999999998875422 22226665554

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 ....

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=90.23  E-value=18  Score=34.67  Aligned_cols=416  Identities=11%  Similarity=-0.007  Sum_probs=225.7

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHH-HHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDS-VFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL  122 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (504)
                      +...|..++.---...+.+.+..++..+...-  |-.. -|......=.+.|..+.+.++|++-.. +++.+...|...+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~ky--Pl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSKY--PLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHH
Confidence            44567777765555556677778888887653  4443 466666666788999999999999876 4456666666666


Q ss_pred             HHHH-hcchHHHHHHHHHHhhcCCCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH---
Q 043204          123 KEMV-KESKLEAAHILFLRSCYGWEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLC---  197 (504)
Q Consensus       123 ~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~---  197 (504)
                      ..+. ..|+.+.....|++...-.|..- +...|...|..-..++++.....+++++++.    ....|+....-|.   
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~~~~~~~f~~f~~~l  196 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PLHQLNRHFDRFKQLL  196 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hhhHhHHHHHHHHHHH
Confidence            6554 44777888888888876444322 3446777777778889999999999999874    3334444443332   


Q ss_pred             hc------CCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh-cCchhHHHHHHHHHHHcCCCCCcchhhhhhccc
Q 043204          198 ND------RRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD-QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCP  270 (504)
Q Consensus       198 ~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (504)
                      +.      ...+++.++-.....+....-..+.......-+.--.. .+..+.+.....+.....            -..
T Consensus       197 ~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~------------~~~  264 (577)
T KOG1258|consen  197 NQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIH------------EKV  264 (577)
T ss_pred             hcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHH------------HHH
Confidence            22      12233333322221000000000011111111111000 111122221111111100            000


Q ss_pred             cCCCCChHHHHHHHHHHHHc---CCC----CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc
Q 043204          271 CNDGEDIEGAKSLINEALIR---GGI----PSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK  343 (504)
Q Consensus       271 ~~~~~~~~~a~~~~~~~~~~---~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  343 (504)
                      +............++..+.+   .+.    ++..+|..-+.--...|+.+.+.-.|+...-.- ..-...|--.+.-...
T Consensus       265 ~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~c-A~Y~efWiky~~~m~~  343 (577)
T KOG1258|consen  265 YQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPC-ALYDEFWIKYARWMES  343 (577)
T ss_pred             HHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHH-hhhHHHHHHHHHHHHH
Confidence            01111111122222222211   011    245667777777777899999988888876531 1122333333444444


Q ss_pred             CCCHHHHHHHHHHHHhcC-CCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchh-hHHHHHHHHhhcCcHHH
Q 043204          344 DGMVDEALEVIEEEMVKG-TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGE-TYGILVDGLCRDGRFLE  421 (504)
Q Consensus       344 ~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~  421 (504)
                      .|+.+-|..++....+-. .-.|....+.+.+  +-..|++..|..+++.+.+.  . |+.. .-..-+....+.|+.+.
T Consensus       344 ~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f--~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~  418 (577)
T KOG1258|consen  344 SGDVSLANNVLARACKIHVKKTPIIHLLEARF--EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLED  418 (577)
T ss_pred             cCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH--HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhh
Confidence            588888887776422211 1123333333333  44678999999999999886  3 5543 22233455667888888


Q ss_pred             HHH---HHHHHHhcCcCCCcchHHHHHHHH-----HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 043204          422 ASR---VLEEMLIRSYWPCVETYNVLIRGL-----CSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNT  487 (504)
Q Consensus       422 A~~---~~~~~~~~~~~~~~~~~~~l~~~~-----~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~  487 (504)
                      +..   ++....+.  .-+....+.+.--+     .-.++.+.|..++.++.+. ..++...|..++.-.....
T Consensus       419 ~~~~~~l~s~~~~~--~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  419 ANYKNELYSSIYEG--KENNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             hhHHHHHHHHhccc--ccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            873   33333221  23333444443333     3468999999999999965 5667788888887544443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.20  E-value=0.41  Score=25.65  Aligned_cols=27  Identities=19%  Similarity=0.301  Sum_probs=15.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          440 TYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       440 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +|..+..+|...|++++|++.|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            345555556666666666666666553

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.14  E-value=1.6  Score=37.57  Aligned_cols=95  Identities=11%  Similarity=0.184  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhhcCCC--CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043204          117 SFNTLLKEMVKESKLEAAHILFLRSCYGWE--VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMK  194 (504)
Q Consensus       117 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  194 (504)
                      +...++..-....+++.++..+-++.....  ..|+... .++++.+ -.-++++++.++..-.+.|+-||.++++.+|.
T Consensus        66 ~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~l~D  143 (418)
T KOG4570|consen   66 TVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMD  143 (418)
T ss_pred             ehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhccccchhhHHHHHH
Confidence            334444444445566666666655554321  1122111 1223322 34467788888888888899999999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 043204          195 GLCNDRRLNEATHLLYSMF  213 (504)
Q Consensus       195 ~~~~~~~~~~a~~~~~~~~  213 (504)
                      .+.+.+++.+|.++...|.
T Consensus       144 ~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  144 SFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             HHHhcccHHHHHHHHHHHH
Confidence            9999999998888877773

>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=90.04  E-value=4.4  Score=32.75  Aligned_cols=83  Identities=14%  Similarity=0.045  Sum_probs=58.7

Q ss_pred             HHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC
Q 043204          160 VLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQG  239 (504)
Q Consensus       160 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  239 (504)
                      .+.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++.+++...++. ...+-.+|+..+.+|+..|.+.|
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l-~~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALEL-SNPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHh-cCCCCCCCHHHHHHHHHHHHHhc
Confidence            3445554 677888888877765555555555655554 67888888888887543 23344678889999999999999


Q ss_pred             chhHHH
Q 043204          240 KIQDAM  245 (504)
Q Consensus       240 ~~~~a~  245 (504)
                      +++.|.
T Consensus       193 ~~e~AY  198 (203)
T PF11207_consen  193 NYEQAY  198 (203)
T ss_pred             chhhhh
Confidence            888774

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.91  E-value=15  Score=33.44  Aligned_cols=65  Identities=18%  Similarity=0.112  Sum_probs=34.2

Q ss_pred             chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCc---cHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          330 SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP---TVRVYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       330 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      ...+|..++..+.+.|.++.|...+.. +...+...   .+.....-+...-..|+..+|+..++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~-~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNR-LFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHH-HhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444566666666667777777666665 33221000   122222333444556666666666666555

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.52  E-value=2.6  Score=36.81  Aligned_cols=52  Identities=15%  Similarity=0.081  Sum_probs=25.0

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMK   72 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (504)
                      |.++|.+++|+..|......+|.   |..++..-..+|.+..++..|..-.....
T Consensus       107 yFKQgKy~EAIDCYs~~ia~~P~---NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai  158 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAVYPH---NPVYHINRALAYLKQKSFAQAEEDCEAAI  158 (536)
T ss_pred             hhhccchhHHHHHhhhhhccCCC---CccchhhHHHHHHHHHHHHHHHHhHHHHH
Confidence            44455555555555555544433   44444444445555555544444443333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.35  E-value=0.51  Score=25.15  Aligned_cols=26  Identities=19%  Similarity=0.372  Sum_probs=14.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          441 YNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       441 ~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      |..+...+...|++++|++.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            44455555566666666666666553

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=89.33  E-value=8.1  Score=29.50  Aligned_cols=53  Identities=11%  Similarity=0.258  Sum_probs=35.3

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      ..++++++..+++.+.-..|+ .+...++...  .+...|+|.+|..+|+.+.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPN-LKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCC-ccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            467778888888877776654 2233444433  4567778888888888877654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=89.11  E-value=9.5  Score=30.02  Aligned_cols=135  Identities=13%  Similarity=0.140  Sum_probs=76.1

Q ss_pred             HHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          316 DKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      .++.+.+.+.+++|+...+..+++.+.+.|++.....++.     .++-+|.......+-.+  .+....+.++--.|.+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq-----~~Vi~DSk~lA~~LLs~--~~~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ-----YHVIPDSKPLACQLLSL--GNQYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh-----hcccCCcHHHHHHHHHh--HccChHHHHHHHHHHH
Confidence            3455666677888888888888888888888766555443     23334443333333222  2223333333333333


Q ss_pred             hcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          396 QVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       396 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +.+     ..+..++..+...|++-+|.++.+.....    +......++.+....+|...-..+++-..+
T Consensus        87 RL~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   87 RLG-----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             Hhh-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            201     13566677788888888888888765332    222334566666666666555555544443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.05  E-value=2.9  Score=39.58  Aligned_cols=26  Identities=19%  Similarity=0.068  Sum_probs=12.9

Q ss_pred             hhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          331 LVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       331 ~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      ..-|..|.++....+++..|.+.|.+
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~  691 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLR  691 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHh
Confidence            34455555555555555555554443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=88.94  E-value=1.5  Score=38.18  Aligned_cols=55  Identities=5%  Similarity=-0.028  Sum_probs=38.6

Q ss_pred             HHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh
Q 043204           53 GILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (504)
                      +-|.++|.+++|+++|....... +.|+.++..-..+|.+...+..|+.-.+....
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia  159 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIA  159 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHH
Confidence            45677788888888887777665 44777777777778877777766655555443

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=88.83  E-value=12  Score=33.61  Aligned_cols=79  Identities=5%  Similarity=0.065  Sum_probs=61.5

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc---CChhHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA---GQLNEAV  100 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~  100 (504)
                      .+.-+.+++++++.+|+   +...+..++..+.+..+.++..+-++.+.... +-+...|...+......   -.++...
T Consensus        47 ~E~klsilerAL~~np~---~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~  122 (321)
T PF08424_consen   47 AERKLSILERALKHNPD---SERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVR  122 (321)
T ss_pred             HHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHH
Confidence            45677899999999886   88889999999999999999999999999875 55677788777766542   2455666


Q ss_pred             HHHHHh
Q 043204          101 SLFKNL  106 (504)
Q Consensus       101 ~~~~~~  106 (504)
                      .+|.+.
T Consensus       123 ~~y~~~  128 (321)
T PF08424_consen  123 DVYEKC  128 (321)
T ss_pred             HHHHHH
Confidence            666544

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.73  E-value=28  Score=34.84  Aligned_cols=334  Identities=11%  Similarity=-0.008  Sum_probs=160.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH
Q 043204           81 SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  160 (504)
                      ..|.....+ .+.|++..+.++...+......| -..|..+.... .....++....+++..   +.+.....-...+..
T Consensus        35 ~~f~~A~~a-~~~g~~~~~~~~~~~l~d~pL~~-yl~y~~L~~~l-~~~~~~ev~~Fl~~~~---~~P~~~~Lr~~~l~~  108 (644)
T PRK11619         35 QRYQQIKQA-WDNRQMDVVEQLMPTLKDYPLYP-YLEYRQLTQDL-MNQPAVQVTNFIRANP---TLPPARSLQSRFVNE  108 (644)
T ss_pred             HHHHHHHHH-HHCCCHHHHHHHHHhccCCCcHh-HHHHHHHHhcc-ccCCHHHHHHHHHHCC---CCchHHHHHHHHHHH
Confidence            334444443 45577777777777665433322 22232222211 1223454444444432   222223333444555


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK  240 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  240 (504)
                      +.+.+++....+.+..-     +.+...-.....+....|+.++|......+.    ..|.. ....+..++..+.+.|.
T Consensus       109 La~~~~w~~~~~~~~~~-----p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW----~~g~~-~p~~cd~l~~~~~~~g~  178 (644)
T PRK11619        109 LARREDWRGLLAFSPEK-----PKPVEARCNYYYAKWATGQQQEAWQGAKELW----LTGKS-LPNACDKLFSVWQQSGK  178 (644)
T ss_pred             HHHccCHHHHHHhcCCC-----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh----ccCCC-CChHHHHHHHHHHHcCC
Confidence            56667777666633111     2344444556666777777777766666552    22221 34566777777776665


Q ss_pred             hhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHH
Q 043204          241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLA-SYSAMAIDLYNEGRIVEGDKVL  319 (504)
Q Consensus       241 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~  319 (504)
                      +.... +...+..                 ....|+...|..+...+-     ++.. ....++...   .+...+...+
T Consensus       179 lt~~d-~w~R~~~-----------------al~~~~~~lA~~l~~~l~-----~~~~~~a~a~~al~---~~p~~~~~~~  232 (644)
T PRK11619        179 QDPLA-YLERIRL-----------------AMKAGNTGLVTYLAKQLP-----ADYQTIASALIKLQ---NDPNTVETFA  232 (644)
T ss_pred             CCHHH-HHHHHHH-----------------HHHCCCHHHHHHHHHhcC-----hhHHHHHHHHHHHH---HCHHHHHHHh
Confidence            44322 2222221                 112234455544444331     1111 112222211   2222222222


Q ss_pred             HHHHHCCCCcchhhHHHHHHHHh--cCCCHHHHHHHHHHHHhcCCCCccHH--HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          320 DEMRTKGFWPSLVMYEAKLAALF--KDGMVDEALEVIEEEMVKGTFVPTVR--VYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       320 ~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      ..     +.|+...-..++.++.  ...+.+.|..++...-......+...  ++..+....+..+...++...+.....
T Consensus       233 ~~-----~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~  307 (644)
T PRK11619        233 RT-----TGPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM  307 (644)
T ss_pred             hc-----cCCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc
Confidence            11     1122211111122221  24456788888876323433333322  334443333333325566666665443


Q ss_pred             hcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          396 QVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       396 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      .   ..+......-+....+.++++.+...+..|.... .-...-.--+.+++...|+.++|...|+++.
T Consensus       308 ~---~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        308 R---SQSTSLLERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             c---cCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            2   2344445555666668888888888888875532 1122222335566677899999999998875

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=87.89  E-value=1.1  Score=29.57  Aligned_cols=48  Identities=23%  Similarity=0.211  Sum_probs=26.2

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHH
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEV   67 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~   67 (504)
                      .+++-++|+..|..++++.+...---.++..++.++...|+++++++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666666443111123455555666666666655543

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.61  E-value=5.7  Score=32.48  Aligned_cols=57  Identities=7%  Similarity=0.040  Sum_probs=29.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMK   72 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (504)
                      ..+..+.+.++.++|+...+.-.+..|.   |...-..+++.++-.|++++|..-++..-
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVkakPt---da~~RhflfqLlcvaGdw~kAl~Ql~l~a   62 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKAKPT---DAGGRHFLFQLLCVAGDWEKALAQLNLAA   62 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCCc---cccchhHHHHHHhhcchHHHHHHHHHHHh
Confidence            3344555555555555555555555444   44445555555555555555554444433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=87.58  E-value=5.6  Score=31.99  Aligned_cols=90  Identities=9%  Similarity=0.049  Sum_probs=48.2

Q ss_pred             HHhccCChhHHHHHHHHhhcCCCCc----cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc
Q 043204           54 ILSESNRITEMKEVIDQMKGDSCEC----KDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES  129 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  129 (504)
                      -+...|++++|..-|...+..-.+.    ....|..-..++++.+.++.|+.-....++.+..- ..+...-..+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty-~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTY-EKALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchh-HHHHHHHHHHHHhhh
Confidence            3455666666666666665543111    11234444556666666666666666655554221 222222334566666


Q ss_pred             hHHHHHHHHHHhhcC
Q 043204          130 KLEAAHILFLRSCYG  144 (504)
Q Consensus       130 ~~~~a~~~~~~~~~~  144 (504)
                      +++.|+.=|.++.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            666676666666543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.07  E-value=5.4  Score=34.58  Aligned_cols=105  Identities=13%  Similarity=0.216  Sum_probs=70.6

Q ss_pred             CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC---CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC
Q 043204          325 KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT---FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA  401 (504)
Q Consensus       325 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  401 (504)
                      .|......+...++..-....+++.+...+-+ ++...   ..|+...+ ..++.+ ..-++++++.++..=..- |+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyK-lRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqY-GiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYK-LRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQY-GIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHH-HhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchh-cccc
Confidence            34455666667777766777888888887776 55431   12222221 223322 334677777777776654 8889


Q ss_pred             chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC
Q 043204          402 NGETYGILVDGLCRDGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       402 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  433 (504)
                      |..+++.+++.+.+.+++.+|..+...|....
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            99999999999999999999888888777653

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.03  E-value=1.4  Score=25.42  Aligned_cols=23  Identities=35%  Similarity=0.388  Sum_probs=12.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 043204          444 LIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       444 l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +..+|...|+.+.|.+++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            44455555555555555555554

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.01  E-value=1.9  Score=24.22  Aligned_cols=28  Identities=29%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      .+++.|...|...|++++|..++++...
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            4677788888888888888888887765

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.81  E-value=15  Score=29.62  Aligned_cols=131  Identities=11%  Similarity=-0.003  Sum_probs=84.8

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHH-HH--HHHHHHHHhcCChhHHHHHHHHhhhCCCC--ccHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDS-VF--ATAIRTYARAGQLNEAVSLFKNLSQFNCV--NWTQSFN  119 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~  119 (504)
                      ...|..++.... .+.+ +.....+.+.... +.+.+ ++  -.+...+...|+++.|+.-++........  ....+-.
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n-~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~l  130 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQAN-GKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhc-cccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHH
Confidence            345666666553 3344 5555566666543 12222 22  33456788899999999999987643211  1112223


Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC
Q 043204          120 TLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQG  181 (504)
Q Consensus       120 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  181 (504)
                      .|.+.....|.+++|+..++..... +.  .......-.+.+...|+-++|..-|....+.+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~~~-~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIKEE-SW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccccc-cH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            4566778889999999999887643 12  22233455678999999999999999998875

>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]

Probab=86.73  E-value=21  Score=31.31  Aligned_cols=61  Identities=13%  Similarity=0.054  Sum_probs=36.0

Q ss_pred             HHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhh
Q 043204          119 NTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDF  179 (504)
Q Consensus       119 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  179 (504)
                      ..|.-...+.|+..+|.+.|+++.+......-......|+.++....-+..+..++-+..+
T Consensus       279 RRLAMCARklGrlrEA~K~~RDL~ke~pl~t~lniheNLiEalLE~QAYADvqavLakYDd  339 (556)
T KOG3807|consen  279 RRLAMCARKLGRLREAVKIMRDLMKEFPLLTMLNIHENLLEALLELQAYADVQAVLAKYDD  339 (556)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3444445567888888888888876544332233445566666666655555555544433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.65  E-value=5.5  Score=32.54  Aligned_cols=79  Identities=9%  Similarity=0.063  Sum_probs=60.0

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC--CCccHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFN--CVNWTQSFNTLLKE  124 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~  124 (504)
                      +.+..++.+.+.++..+++...+.-.+.. |.|...-..++..++-.|++++|..-++..-+..  ..+....|..+|++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556777888899999999998887775 6677778889999999999999998887665433  33445677777765


Q ss_pred             HH
Q 043204          125 MV  126 (504)
Q Consensus       125 ~~  126 (504)
                      -.
T Consensus        82 ea   83 (273)
T COG4455          82 EA   83 (273)
T ss_pred             HH
Confidence            43

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.60  E-value=39  Score=34.27  Aligned_cols=231  Identities=13%  Similarity=0.024  Sum_probs=118.7

Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHh-------hHHHHHH-HHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHH
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRE-------SYHILMK-GLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLL  232 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~-------~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~  232 (504)
                      .....++.+|..++.+....-..|+..       .++.|-. .....|+++.+.++-+.....+...-..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            345678889988888776542222221       2333322 23467889999999888755444444555677778888


Q ss_pred             HHHHhcCchhHHHHHHHHHHHcCCCCCc----chhhhhhccccCCCCChHHHH--HHHHHHHHc---CCC---CChhhHH
Q 043204          233 FALCDQGKIQDAMQILEKILRKGLKAPK----SRRHRIDLCPCNDGEDIEGAK--SLINEALIR---GGI---PSLASYS  300 (504)
Q Consensus       233 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~a~--~~~~~~~~~---~~~---~~~~~~~  300 (504)
                      .+..-.|++++|..+..+..+....-+.    ..........+...|+...+.  ..+......   ...   +-..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            8888899999999888877664211111    111111223344555333222  222222211   000   1122333


Q ss_pred             HHHHHHHhc-CChhHHHHHHHHHHHCCCCcchhhH--HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCc----cHHHHHHH
Q 043204          301 AMAIDLYNE-GRIVEGDKVLDEMRTKGFWPSLVMY--EAKLAALFKDGMVDEALEVIEEEMVKGTFVP----TVRVYNIL  373 (504)
Q Consensus       301 ~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l  373 (504)
                      .++.++.+. +...++..-++........|-....  ..|+......|+.++|...+++ +......+    +..+-...
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~-~~~l~~~~~~~~~~~a~~~~  663 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDE-LERLLLNGQYHVDYLAAAYK  663 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHHhcCCCCCchHHHHHHH
Confidence            344444432 2222222222222222222222222  2567777888999999888776 44333222    22222222


Q ss_pred             HH--HHHhcCChHHHHHHHHH
Q 043204          374 LK--GLCDAGNSAVAVMYLKK  392 (504)
Q Consensus       374 ~~--~~~~~~~~~~a~~~~~~  392 (504)
                      +.  .....|+.+.+.....+
T Consensus       664 v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         664 VKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             hhHHHhcccCCHHHHHHHHHh
Confidence            22  23356777777666655

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=86.19  E-value=23  Score=31.14  Aligned_cols=68  Identities=15%  Similarity=0.223  Sum_probs=37.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH-HHhcCchhHHHHHHHHHHHcC
Q 043204          188 SYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFA-LCDQGKIQDAMQILEKILRKG  255 (504)
Q Consensus       188 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~  255 (504)
                      .+-.....|++.|+.+.|++.+.+-+++....|.+.|+..+..-+.. |....-+.+-++..+.+.+.|
T Consensus       106 a~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~G  174 (393)
T KOG0687|consen  106 AMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEG  174 (393)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhC
Confidence            34445556777777777777777776666666777676555443332 222222344444444444443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.17  E-value=2.2  Score=23.93  Aligned_cols=25  Identities=36%  Similarity=0.490  Sum_probs=11.3

Q ss_pred             HHHHHHHHhhcCcHHHHHHHHHHHH
Q 043204          406 YGILVDGLCRDGRFLEASRVLEEML  430 (504)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~~~~  430 (504)
                      ++.|...|...|++++|..++++..
T Consensus         5 ~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    5 LNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcchhhHHHHHHH
Confidence            3444444444444444444444443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=86.01  E-value=20  Score=30.81  Aligned_cols=119  Identities=13%  Similarity=0.068  Sum_probs=61.6

Q ss_pred             hcCChhHHHHHHHHHHhcCCC---CCcchh--------cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204           20 KQKSPLTALKIFKEAKEKYPN---YRHNGP--------VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~---~~~~~~--------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      -..|+..|++.-++..+...+   ...+..        ....=|.++++.|+|.++..+.-+--+.--+..+.+...=|-
T Consensus        47 V~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCIL  126 (309)
T PF07163_consen   47 VHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCIL  126 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHH
Confidence            356777888777777665311   111111        122234677777777777666544333211223334444455


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh-----cchHHHHHHHH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK-----ESKLEAAHILF  138 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-----~~~~~~a~~~~  138 (504)
                      .|.+.+.+..+.++-....+..-.-+..-|.+++..|..     .|.+++|+++.
T Consensus       127 LysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  127 LYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            566777777777666655543222222335555554443     36666666555

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.91  E-value=22  Score=30.77  Aligned_cols=59  Identities=7%  Similarity=0.088  Sum_probs=28.9

Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043204          150 RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-GCYPDRESYHILMKGLCNDRRLNEATHL  208 (504)
Q Consensus       150 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~  208 (504)
                      +..+...++..+++.+++.+-.++++..... +..-|...|..+|+.-...|+..-...+
T Consensus       201 ~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki  260 (292)
T PF13929_consen  201 TRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI  260 (292)
T ss_pred             ChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence            3334444555555555555555555544433 3334555555555555555554444333

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.46  E-value=42  Score=33.50  Aligned_cols=102  Identities=17%  Similarity=0.136  Sum_probs=55.0

Q ss_pred             HHHHhccCChhHHHHHHHHhhcCCCCc---cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc
Q 043204           52 IGILSESNRITEMKEVIDQMKGDSCEC---KDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE  128 (504)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (504)
                      ++-+.+.+.+++|.++.+.....  .|   -.......|..+.-.|++++|-...-.|....    ..-|.-.+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~----~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNN----AAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcch----HHHHHHHHHHhccc
Confidence            45566777778887777665543  33   23446667777777778888777777666543    33333333444444


Q ss_pred             chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204          129 SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      ++......+   +... +...+...|..++..+..
T Consensus       437 ~~l~~Ia~~---lPt~-~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTDIAPY---LPTG-PPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccchhhcc---CCCC-CcccCchHHHHHHHHHHH
Confidence            433332221   1111 112234456666666655

>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=85.27  E-value=17  Score=28.89  Aligned_cols=62  Identities=16%  Similarity=0.080  Sum_probs=35.5

Q ss_pred             CCCch-hhHHHHHHHHhhcC----c-------HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          399 CVANG-ETYGILVDGLCRDG----R-------FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       399 ~~p~~-~~~~~l~~~~~~~g----~-------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +.|+. .++.++..+|...+    +       +++|...|++....  .|+...|+.-+....      +|-++..++.+
T Consensus        64 I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~  135 (186)
T PF06552_consen   64 INPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHK  135 (186)
T ss_dssp             H-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHH
Confidence            45654 46666666665443    2       45555555555553  588888888877663      46666666665


Q ss_pred             cC
Q 043204          467 QA  468 (504)
Q Consensus       467 ~~  468 (504)
                      ++
T Consensus       136 ~~  137 (186)
T PF06552_consen  136 QG  137 (186)
T ss_dssp             SS
T ss_pred             HH
Confidence            54

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.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=85.12  E-value=35  Score=32.80  Aligned_cols=112  Identities=13%  Similarity=-0.058  Sum_probs=79.7

Q ss_pred             hhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHH
Q 043204          262 RRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAAL  341 (504)
Q Consensus       262 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  341 (504)
                      .......-++.-.|+...|.+.+..+....+.-..+....+...+.+.|-..+|-.++.+..... ...+.++-.+.++|
T Consensus       608 ~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~  686 (886)
T KOG4507|consen  608 LILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAY  686 (886)
T ss_pred             EEeecccceeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhH
Confidence            33344455667889999999998888755444444555566666777777888888887776654 33567778888999


Q ss_pred             hcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Q 043204          342 FKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKG  376 (504)
Q Consensus       342 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  376 (504)
                      ....++++|++.|+++|...  +.+..+-+.|...
T Consensus       687 l~l~~i~~a~~~~~~a~~~~--~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  687 LALKNISGALEAFRQALKLT--TKCPECENSLKLI  719 (886)
T ss_pred             HHHhhhHHHHHHHHHHHhcC--CCChhhHHHHHHH
Confidence            99999999999999988775  3445555555443

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=84.72  E-value=3  Score=24.12  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=12.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhC
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      +..+|...|+.+.|.++++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445555555555555555555543

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.

>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=84.46  E-value=84  Score=36.16  Aligned_cols=150  Identities=9%  Similarity=-0.027  Sum_probs=87.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHh----hhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH
Q 043204           85 TAIRTYARAGQLNEAVSLFKNL----SQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  160 (504)
                      .+..+-.+++.+.+|.-.++.-    ++..  ....-|..+...|...+++|....+...-..    .|+.   ..-|..
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~--~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a----~~sl---~~qil~ 1458 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKE--TEEALYFLLQNLYGSIHDPDGVEGVSARRFA----DPSL---YQQILE 1458 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhH--HHHHHHHHHHHHHHhcCCcchhhhHHHHhhc----CccH---HHHHHH
Confidence            4455666778888888888873    2221  1122333444488888888887777764221    1221   233445


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-HHHHHhcC
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTL-LFALCDQG  239 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g  239 (504)
                      ....|++..|...|+.+.+.+ ++...+++-++......+.++.+.-..+-.    . ....+....++++ +.+--+.+
T Consensus      1459 ~e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~----~-~~~se~~~~~~s~~~eaaW~l~ 1532 (2382)
T KOG0890|consen 1459 HEASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGL----I-INRSEEVDELNSLGVEAAWRLS 1532 (2382)
T ss_pred             HHhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcch----h-hccCHHHHHHHHHHHHHHhhhc
Confidence            566789999999999998774 223667777777777777777766654443    1 1122223333332 23335666


Q ss_pred             chhHHHHHHH
Q 043204          240 KIQDAMQILE  249 (504)
Q Consensus       240 ~~~~a~~~~~  249 (504)
                      +++.....+.
T Consensus      1533 qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1533 QWDLLESYLS 1542 (2382)
T ss_pred             chhhhhhhhh
Confidence            6666665554

>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=83.53  E-value=1.8  Score=22.96  Aligned_cols=29  Identities=28%  Similarity=0.250  Sum_probs=22.6

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYP   39 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p   39 (504)
                      |..+...|...|++++|...|++..+..|
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            55677788888888888888888877643

...

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=83.42  E-value=29  Score=30.54  Aligned_cols=134  Identities=14%  Similarity=0.039  Sum_probs=66.6

Q ss_pred             CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHh---cCCCCchh
Q 043204          328 WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQ---VGCVANGE  404 (504)
Q Consensus       328 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~~~  404 (504)
                      ..|...++.|..+  +..++++-.+..+++-+..|-.--...+......|++.||.+.|++.+.+..++   .|.+.|..
T Consensus        67 ~~D~~~l~~m~~~--neeki~eld~~iedaeenlGE~ev~ea~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiDVv  144 (393)
T KOG0687|consen   67 KLDQDLLNSMKKA--NEEKIKELDEKIEDAEENLGESEVREAMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKIDVV  144 (393)
T ss_pred             eccHHHHHHHHHh--hHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchhhH
Confidence            3344444444432  122333444444443333333333445566667788888888888777765443   14555554


Q ss_pred             hHHHHH-HHHhhcCcHHHHHHHHHHHHhcCcC----CCcchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          405 TYGILV-DGLCRDGRFLEASRVLEEMLIRSYW----PCVETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       405 ~~~~l~-~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      .+.+=+ -.|....-+.+-.+..+.+.+.|..    ....+|..+-  |....++++|-.+|-+..
T Consensus       145 f~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly--~msvR~Fk~Aa~Lfld~v  208 (393)
T KOG0687|consen  145 FYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLY--CMSVRNFKEAADLFLDSV  208 (393)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHH--HHHHHhHHHHHHHHHHHc
Confidence            443322 2233333334444444455555432    2234444443  334567777777776665

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.42  E-value=35  Score=31.03  Aligned_cols=193  Identities=11%  Similarity=0.052  Sum_probs=99.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC----CccHHHHHHHHHH
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC----ECKDSVFATAIRT   89 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~   89 (504)
                      ...+.-+.|+|+...+........    .++...+.++...  ..++++++...++.+...-.    ......|......
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~----~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~   77 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED----SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPS   77 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC----ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            346677889999855554444332    2345555555443  78889988888877664310    0111222222222


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc-----chHHHHHHHH---HHhhc-CCCCcchHHHHHHHHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE-----SKLEAAHILF---LRSCY-GWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~---~~~~~-~~~~~~~~~~~~~l~~~  160 (504)
                      ..+...+.+..++.+........  ......++......     .+++.-..++   ..+.. .........+|..++..
T Consensus        78 l~~lq~L~Elee~~~~~~~~~~~--~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~  155 (352)
T PF02259_consen   78 LVKLQQLVELEEIIELKSNLSQN--PQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKL  155 (352)
T ss_pred             HHHHhHHHHHHHHHHHHHhhccc--HHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHH
Confidence            22222223322222222111000  11112222222111     1111111111   11111 01123456678888899


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYP---DRESYHILMKGLCNDRRLNEATHLLYSMFW  214 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  214 (504)
                      +.+.|.++.|...+..+...+...   ++.....-++..-..|+..+|...++....
T Consensus       156 aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  156 ARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999988753211   334445556667788999999999888743

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=83.09  E-value=3.5  Score=21.81  Aligned_cols=27  Identities=22%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          440 TYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       440 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456666777777888888888777764

...

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.04  E-value=24  Score=32.78  Aligned_cols=88  Identities=14%  Similarity=0.051  Sum_probs=41.9

Q ss_pred             HhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHH
Q 043204          341 LFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFL  420 (504)
Q Consensus       341 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  420 (504)
                      +...|+++.+...+.. .... +-....+...+++.....|+++.|...-+.|... .+. ++.......-..-..|-++
T Consensus       333 ~~~lg~ye~~~~~~s~-~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~-eie-~~ei~~iaa~sa~~l~~~d  408 (831)
T PRK15180        333 FSHLGYYEQAYQDISD-VEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSN-EIE-DEEVLTVAAGSADALQLFD  408 (831)
T ss_pred             HHHhhhHHHHHHHhhc-hhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhcc-ccC-ChhheeeecccHHHHhHHH
Confidence            4455666666655554 2111 2233345555555666666666666666555543 222 2222222222223345556


Q ss_pred             HHHHHHHHHHhc
Q 043204          421 EASRVLEEMLIR  432 (504)
Q Consensus       421 ~A~~~~~~~~~~  432 (504)
                      ++...|++....
T Consensus       409 ~~~~~wk~~~~~  420 (831)
T PRK15180        409 KSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHHHhcc
Confidence            666666655543

>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=82.75  E-value=15  Score=29.89  Aligned_cols=75  Identities=12%  Similarity=-0.068  Sum_probs=55.2

Q ss_pred             hHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC---CCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043204          130 KLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ---GCYPDRESYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~  206 (504)
                      .-+.|.+.|-.+...+.+ -++.....|...|. ..|.+++..++.+..+.   +-.+|+..+.+|++.+.+.|+++.|-
T Consensus       121 ~d~~A~~~fL~~E~~~~l-~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPEL-ETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            346677777777655444 34555555665555 78899999998887653   33678899999999999999998874

>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=82.61  E-value=2.2  Score=21.13  Aligned_cols=17  Identities=35%  Similarity=0.313  Sum_probs=7.3

Q ss_pred             HHHHHccCCHHHHHHHH
Q 043204          445 IRGLCSIGKQYEAVMWL  461 (504)
Q Consensus       445 ~~~~~~~g~~~~a~~~~  461 (504)
                      ..++...|++++|..++
T Consensus         8 a~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    8 ARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHcCCHHHHHHHH
Confidence            33444444444444443

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

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.92  E-value=29  Score=28.99  Aligned_cols=18  Identities=22%  Similarity=0.427  Sum_probs=11.5

Q ss_pred             HHhccCChhHHHHHHHHh
Q 043204           54 ILSESNRITEMKEVIDQM   71 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~   71 (504)
                      .+.-.+++++|.++|.+.
T Consensus        23 lfgg~~k~eeAadl~~~A   40 (288)
T KOG1586|consen   23 LFGGSNKYEEAAELYERA   40 (288)
T ss_pred             ccCCCcchHHHHHHHHHH
Confidence            344555777777777654

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=81.77  E-value=6.2  Score=33.83  Aligned_cols=58  Identities=21%  Similarity=0.222  Sum_probs=34.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      ++...+.|..+|.+.+|.++.+...+.+ +.+...+-.++..+...|+--.+.+-++++
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            4444556666666666666666666554 334455556666666666655555555444

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=81.60  E-value=21  Score=27.27  Aligned_cols=81  Identities=10%  Similarity=0.194  Sum_probs=43.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCC-----CccHHHHHHHHHHHHhcCC-hhHHHHHHHHhhhCCCCccHHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSC-----ECKDSVFATAIRTYARAGQ-LNEAVSLFKNLSQFNCVNWTQSFNTL  121 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (504)
                      .|.++......+++.-...+++.+.....     ..+...|..++....+... --.+..+|+.+++.+.+.+..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            45666665666666666666665532210     1233445666666544444 33455566666655555655666666


Q ss_pred             HHHHHhc
Q 043204          122 LKEMVKE  128 (504)
Q Consensus       122 l~~~~~~  128 (504)
                      +.++.+.
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            6555443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.38  E-value=16  Score=29.57  Aligned_cols=59  Identities=17%  Similarity=0.158  Sum_probs=27.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          196 LCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       196 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      +.+.|++++|..-|...+.......-......|..-..+..+.+.++.|++--...++.
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel  163 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIEL  163 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhc
Confidence            44556666666666555211111111111233444445555666666666555555443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.34  E-value=6.1  Score=26.23  Aligned_cols=16  Identities=13%  Similarity=0.150  Sum_probs=6.5

Q ss_pred             HHHHHHHHhcCChHHH
Q 043204          371 NILLKGLCDAGNSAVA  386 (504)
Q Consensus       371 ~~l~~~~~~~~~~~~a  386 (504)
                      ..++.+|+..|++.++
T Consensus        47 G~l~qA~~e~Gkyr~~   62 (80)
T PF10579_consen   47 GYLIQAHMEWGKYREM   62 (80)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3334444444444433

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.96  E-value=3.4  Score=21.53  Aligned_cols=17  Identities=24%  Similarity=0.532  Sum_probs=6.6

Q ss_pred             HccCCHHHHHHHHHHHH
Q 043204          449 CSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       449 ~~~g~~~~a~~~~~~~~  465 (504)
                      .+.|++++|.+.|+++.
T Consensus        11 ~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen   11 YKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHH
Confidence            33333344444333333

---

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	504
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-11

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.6 bits (158), Expect = 2e-11
 Identities = 25/193 (12%), Positives = 49/193 (25%), Gaps = 4/193 (2%)

Query: 314 EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIE--EEMVKGTFVPTVRVYN 371
                  +              A          +  A  ++       +   + T+ +YN
Sbjct: 110 VEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYN 169

Query: 372 ILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEA-SRVLEEML 430
            ++ G    G     V  L  + K  G   +  +Y   +  + R  +      R LE+M 
Sbjct: 170 AVMLGWARQGAFKELVYVLFMV-KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS 228

Query: 431 IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADL 490
                       VL+                       +LP     S L+  V      +
Sbjct: 229 QEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRV 288

Query: 491 NVCRKTLEQLSSC 503
           +  +  L   +  
Sbjct: 289 SYPKLHLPLKTLQ 301

>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 = 6e-08
 Identities = 20/143 (13%), Positives = 45/143 (31%), Gaps = 6/143 (4%)

Query: 328 WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG--NSAV 385
           W   +    + A       V++A      +         +  +    K          A 
Sbjct: 91  WEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF---FKCCLLTDQLPLAH 147

Query: 386 AVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLI 445
            ++ +    +Q   +   + Y  ++ G  R G F E   VL  +      P + +Y   +
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Query: 446 RGLCSIGKQYEAV-MWLEEMISQ 467
           + +    +    +   LE+M  +
Sbjct: 208 QCMGRQDQDAGTIERCLEQMSQE 230

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.9 bits (125), Expect = 2e-07
 Identities = 37/304 (12%), Positives = 87/304 (28%), Gaps = 29/304 (9%)

Query: 116 QSFNTLLKEMVKESKLEAAHILF--LRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV 173
           Q      K  +   +L  AH L               +   N +M    +       ++V
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 174 FQEMDFQGCYPDRESYHILMKGLCN-DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLL 232
              +   G  PD  SY   ++ +   D+        L  M      +   +   ++  +L
Sbjct: 188 LFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM-----SQEGLKLQALFTAVL 242

Query: 233 FALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGG 292
            +  D+  +  A+  ++       + P      ++          +  +    +  +   
Sbjct: 243 LSEEDRATVLKAVHKVKPTFSLPPQLPP----PVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

Query: 293 IPSLASYSAMAIDLYNEGRIV---EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDE 349
                    + ++L +   +V   +      E++        +  + +         +  
Sbjct: 299 TLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWE-------KALCR 351

Query: 350 ALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGIL 409
           AL   +  + +  +         L   LC      V  M L+ +       A GE++  L
Sbjct: 352 ALRETKNRLEREVY----EGRFSLYPFLCLLDEREVVRMLLQVLQA---LPAQGESFTTL 404

Query: 410 VDGL 413
              L
Sbjct: 405 AREL 408

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.1 bits (123), Expect = 4e-07
 Identities = 24/183 (13%), Positives = 53/183 (28%), Gaps = 9/183 (4%)

Query: 278 EGAKSLINEALIRGGIPSLASYSAMAIDLY-NEGRIVEGDKVLDEMR---TKGFWPSLVM 333
           +      ++A + G    L ++            ++     +L        K    +L M
Sbjct: 112 QAPSGQHSQAQLSGQQQRLLAF----FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDM 167

Query: 334 YEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKM 393
           Y A +    + G   E + V+   +      P +  Y   L+ +      A  +    + 
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFM-VKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 394 SKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGK 453
             Q G         +L+    R        +V     +    P     + L+R + +   
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG 286

Query: 454 QYE 456
           +  
Sbjct: 287 RVS 289

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.5 bits (98), Expect = 3e-04
 Identities = 30/168 (17%), Positives = 54/168 (32%), Gaps = 3/168 (1%)

Query: 271 CNDGEDIEGAKSLIN---EALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGF 327
           C   + +  A  L+        +  + +L  Y+A+ +    +G   E   VL  ++  G 
Sbjct: 137 CLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL 196

Query: 328 WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAV 387
            P L+ Y A L  + +       +E   E+M +           +LL     A       
Sbjct: 197 TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVH 256

Query: 388 MYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYW 435
                 S          T  +L D   +DGR       L    ++  +
Sbjct: 257 KVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLF 304

>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 = 63.7 bits (154), Expect = 9e-11
 Identities = 82/579 (14%), Positives = 160/579 (27%), Gaps = 193/579 (33%)

Query: 8   LLTPTY---LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEM 64
           +L   Y   +S I  +Q+ P    +++ E +++  N   +  V+A         +R+   
Sbjct: 86  VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN---DNQVFAKY-----NVSRLQPY 137

Query: 65  KE--------------VIDQMKGDSCEC-KDSVFATAIRTYAR------------AGQLN 97
            +              +ID + G      K  V      +Y                  N
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLG----SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193

Query: 98  EAVSLFKNLSQFNCVNWTQSFNTLLKEMVK-----ESKLEAAHILFLRSCYG-------- 144
              ++ + L +        ++ +             S       L     Y         
Sbjct: 194 SPETVLEMLQKL-LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252

Query: 145 -WEVKSRIQSLNLLMDVLCQCR-----R---------SDLALHVFQEMDFQGCYPDRESY 189
               K+   + NL       C+     R         +    H+  +       PD E  
Sbjct: 253 VQNAKA-WNAFNL------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD-EVK 304

Query: 190 HILMKGL-CNDRRL-NEA--TH-LLYSMF-------------WR----------IS---- 217
            +L+K L C  + L  E   T+    S+              W+          I     
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 218 ------QKGSGEDIVIYR-------TLLFALCDQGKIQDAMQILEKILRKGL--KAPKSR 262
                  +   + + ++         LL  +       D M ++ K+ +  L  K PK  
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424

Query: 263 RHRI-DL-----CPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGD 316
              I  +         +   +   +S+++                     YN  +  + D
Sbjct: 425 TISIPSIYLELKVKLENEYALH--RSIVDH--------------------YNIPKTFDSD 462

Query: 317 KVLDEMRTKGFWPSLVMY------EAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVY 370
            ++       ++ S + +        +   LF+   +D     +E+++   +        
Sbjct: 463 DLIPP-YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD--FRFLEQKIRHDSTAWNASGS 519

Query: 371 NILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEML 430
             +L  L            LK     +    N   Y  LV+ +     FL     +EE L
Sbjct: 520 --ILNTLQQ----------LKFYKPYI--CDNDPKYERLVNAI---LDFLPK---IEENL 559

Query: 431 IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAK 469
           I S     +    L+R    I    E     EE   Q +
Sbjct: 560 ICS--KYTD----LLR----IALMAEDEAIFEEAHKQVQ 588

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	504
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	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.87
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.79
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.77
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.76
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.7
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.64
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.64
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.64
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.64
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.62
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.61
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.61
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.61
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.61
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.61
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.6
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.59
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.58
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.51
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.49
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.48
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.48
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.4
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.37
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.36
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.3
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.28
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.23
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.22
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.21
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.21
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.17
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.16
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.15
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.1
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.06
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.06
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.06
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.05
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.03
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.02
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.02
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.02
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.01
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.01
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.0
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.0
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.97
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.97
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.96
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.93
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.88
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.86
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.85
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.83
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.83
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.83
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.83
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.82
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.81
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.79
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.78
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.77
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.76
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.76
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.76
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.76
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.75
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.75
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.75
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.71
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.67
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.66
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.65
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.64
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.63
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.63
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.62
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.62
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.61
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.6
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.6
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.59
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.59
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.58
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.57
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.55
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.54
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.54
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.52
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.52
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.52
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.52
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.49
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.47
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.46
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.46
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.45
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.44
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.43
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.41
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.41
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.41
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.39
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.37
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.34
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.32
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.31
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.3
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.29
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.28
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.26
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.24
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.21
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.15
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.14
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.14
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.12
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.09
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.06
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.97
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.96
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.95
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.92
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.86
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.86
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.86
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.79
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.79
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.68
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.67
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.6
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.58
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.48
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.47
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.45
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.34
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.2
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.19
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.15
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.01
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.0
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.98
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.96
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.95
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.92
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.89
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.84
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.55
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.37
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.37
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.33
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.3
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.26
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.04
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.94
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.92
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.9
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.82
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.79
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.31
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.92
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.6
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.45
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.1
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.86
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.65
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.61
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.34
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.21
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.59
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.14
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.6
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.42
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.27
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.5
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.19
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.88
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.14
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.1
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.0
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.32
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.27
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	84.89
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.63
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.36
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	83.05
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	82.5
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.34

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5e-42  Score=335.69  Aligned_cols=472  Identities=11%  Similarity=-0.008  Sum_probs=258.9

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +...|+.++..|.+.|++++|+.+|+++....|    +..++..++.+|.+.|++++|..+|+.+...  +++..+++.+
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  156 (597)
T 2xpi_A           83 REDYLRLWRHDALMQQQYKCAAFVGEKVLDITG----NPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLA  156 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC----CHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCchHHHHHHHHHHhhCC----CchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHH
Confidence            344455666666666666666666666654432    4455556666666666666666666665433  4555566666


Q ss_pred             HHHHHhcCChhHHHHHHHHhhh-C--------------CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchH
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQ-F--------------NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRI  151 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~-~--------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (504)
                      +.+|.+.|++++|.++|+++.. .              +.+++..+|+.++.+|.+.|++++|...|+++....+.  +.
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~  234 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK--CY  234 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch--hh
Confidence            6666666666666666653211 1              12234556666666666666666666666665543211  11


Q ss_pred             HHHHHHHHHHhhcCCHHHHH--HH-HHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          152 QSLNLLMDVLCQCRRSDLAL--HV-FQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~--~~-~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      ..+..+...+...++.+.+.  .+ +..+...+..+...+|+.++..|.+.|++++|.++|+++    ...  .++..++
T Consensus       235 ~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~----~~~--~~~~~~~  308 (597)
T 2xpi_A          235 EAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSI----NGL--EKSSDLL  308 (597)
T ss_dssp             HHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTS----TTG--GGCHHHH
T ss_pred             HHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHh----hcC--CchHHHH
Confidence            22222222111111110000  00 111111111111222333344455566666666666655    222  3556666


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 043204          229 RTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYN  308 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  308 (504)
                      +.++.+|.+.|++++|.++|+++.+.+  |.+......++..+...|++++|..+++.+..... .+..+++.++..|.+
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~  385 (597)
T 2xpi_A          309 LCKADTLFVRSRFIDVLAITTKILEID--PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLC  385 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHH
Confidence            666666666666666666666666543  33444455555555666666666666666654432 245566666666666


Q ss_pred             cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHH
Q 043204          309 EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVM  388 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  388 (504)
                      .|++++|.++|+++.+.... +..+|+.++.+|.+.|++++|.++|++++...  +.+..+|..++.+|.+.|++++|.+
T Consensus       386 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  462 (597)
T 2xpi_A          386 VNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF--QGTHLPYLFLGMQHMQLGNILLANE  462 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--TTCSHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            66666666666666654322 45566666666666666666666666633322  3355566666666666666666666


Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhc----CcCCC--cchHHHHHHHHHccCCHHHHHHHHH
Q 043204          389 YLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIR----SYWPC--VETYNVLIRGLCSIGKQYEAVMWLE  462 (504)
Q Consensus       389 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~  462 (504)
                      +|+++.+.  .+.+..+|..++.+|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++
T Consensus       463 ~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (597)
T 2xpi_A          463 YLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALN  540 (597)
T ss_dssp             HHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            66666653  2234556666666666666666666666666554    33454  4566666666666666666666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          463 EMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       463 ~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      ++.+.+ +.+..+|..+..+|...|+ +++|.++++++.+
T Consensus       541 ~~~~~~-p~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~l~  578 (597)
T 2xpi_A          541 QGLLLS-TNDANVHTAIALVYLHKKI-PGLAITHLHESLA  578 (597)
T ss_dssp             HHHHHS-SCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCC-HHHHHHHHHHHHh
Confidence            666543 2345566666666555555 6666666666543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.3e-39  Score=314.22  Aligned_cols=457  Identities=11%  Similarity=-0.041  Sum_probs=370.3

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEA   99 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (504)
                      ..|.+..+...++.+..      ++...|+.++..|.+.|++++|..+|+++...  .|+..++..++.+|.+.|++++|
T Consensus        65 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A  136 (597)
T 2xpi_A           65 TDGSFLKERNAQNTDSL------SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARA  136 (597)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccCccCCCCCccccchH------HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHH
Confidence            34444445555544332      37888999999999999999999999999865  46778899999999999999999


Q ss_pred             HHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC--------------CCcchHHHHHHHHHHHhhcC
Q 043204          100 VSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW--------------EVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--------------~~~~~~~~~~~l~~~~~~~~  165 (504)
                      ..+|+.+...  +++..+++.++.+|.+.|++++|..+|+++....              +.+++..+|+.++.+|.+.|
T Consensus       137 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  214 (597)
T 2xpi_A          137 KCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLS  214 (597)
T ss_dssp             HHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcC
Confidence            9999988643  5678899999999999999999999998644332              23457889999999999999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH--H-HHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchh
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATH--L-LYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQ  242 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~--~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  242 (504)
                      ++++|.++|++|.+.+. .+...+..+...+...+..+.+..  + +..+    ...+..+...+|+.++..|.+.|+++
T Consensus       215 ~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~~~~~~~~~~~~~~~~g~~~  289 (597)
T 2xpi_A          215 NFDRAKECYKEALMVDA-KCYEAFDQLVSNHLLTADEEWDLVLKLNYSTY----SKEDAAFLRSLYMLKLNKTSHEDELR  289 (597)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHH----HGGGHHHHHHHHHTTSCTTTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCc-hhhHHHHHHHHhhcccchhHHHHHHhcCCccc----ccchHHHHHHHHHHHHHHHcCcchHH
Confidence            99999999999988642 245555556554443333222211  1 3333    44455556677888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 043204          243 DAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEM  322 (504)
Q Consensus       243 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  322 (504)
                      +|.++|+++.+.   |++......++..+...|++++|..+|+++.+.+.. +..++..++.++.+.|++++|..+++++
T Consensus       290 ~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  365 (597)
T 2xpi_A          290 RAEDYLSSINGL---EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDL  365 (597)
T ss_dssp             HHHHHHHTSTTG---GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcC---CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            999999998775   466677777889999999999999999999987754 7889999999999999999999999999


Q ss_pred             HHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc
Q 043204          323 RTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN  402 (504)
Q Consensus       323 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  402 (504)
                      .+.. +.+..+++.++.+|.+.|++++|.++|++++...  +.+..+|+.++.+|.+.|++++|.++|+++.+.  .+.+
T Consensus       366 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~  440 (597)
T 2xpi_A          366 VDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD--PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGT  440 (597)
T ss_dssp             HHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTC
T ss_pred             HhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Cccc
Confidence            8764 3478899999999999999999999999955543  446789999999999999999999999999874  3457


Q ss_pred             hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCC--HHHH
Q 043204          403 GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ----AKLPD--ISVW  476 (504)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~  476 (504)
                      ..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+|
T Consensus       441 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~  519 (597)
T 2xpi_A          441 HLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATW  519 (597)
T ss_dssp             SHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHH
Confidence            8899999999999999999999999999864 457889999999999999999999999999876    67888  7899


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          477 SSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       477 ~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      ..+..+|++.|+ +++|.++++++.+
T Consensus       520 ~~l~~~~~~~g~-~~~A~~~~~~~~~  544 (597)
T 2xpi_A          520 ANLGHAYRKLKM-YDAAIDALNQGLL  544 (597)
T ss_dssp             HHHHHHHHHTTC-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-HHHHHHHHHHHHH
Confidence            999999888877 9999999999875

>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=100.00  E-value=4e-29  Score=230.45  Aligned_cols=363  Identities=15%  Similarity=0.052  Sum_probs=216.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      +...+.+.|++++|++.|+.+.+..|+   +...+..+...+...|++++|...++...+.. +.+..+|..+..++.+.
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~   80 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD---NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKER   80 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHC
Confidence            456677788888888888888888776   66677777788888888888888888877765 66777788888888888


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      |++++|+..|+++.+.. +.+..+|..+...+.+.|++++|...|+++....  +.+...+..+...+...|++++|.+.
T Consensus        81 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~  157 (388)
T 1w3b_A           81 GQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHH
Confidence            88888888888877654 2234456666666666777777766666665432  11233445555666666666666666


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          174 FQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       174 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      |+++.+.. +.+..+|..+...+...|++++|...|+++    ..... .+...+..+...+...|++++|...+++...
T Consensus       158 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a----l~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  231 (388)
T 1w3b_A          158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKA----VTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH----HHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66665542 123455666666666666666666666665    22221 1344555555556666666666665555554


Q ss_pred             cCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhh
Q 043204          254 KGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVM  333 (504)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  333 (504)
                      ...                                     .+..++..+...+...|++++|...|+++.+.++. +..+
T Consensus       232 ~~p-------------------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~  273 (388)
T 1w3b_A          232 LSP-------------------------------------NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDA  273 (388)
T ss_dssp             HCT-------------------------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHH
T ss_pred             hCc-------------------------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHH
Confidence            321                                     13444555555555556666666655555554322 3444


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHH
Q 043204          334 YEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGL  413 (504)
Q Consensus       334 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  413 (504)
                      +..+...+.+.|++++|...|++++...  +.+..++..+...+...|++++|.+.++++.+.  .+.+..++..+..+|
T Consensus       274 ~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  349 (388)
T 1w3b_A          274 YCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVL  349 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH
Confidence            5555555555555555555555533332  334445555555555555555555555555432  122334455555555


Q ss_pred             hhcCcHHHHHHHHHHHHh
Q 043204          414 CRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       414 ~~~g~~~~A~~~~~~~~~  431 (504)
                      .+.|++++|.+.++++.+
T Consensus       350 ~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          350 QQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HTTTCCHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHh
Confidence            555555555555555554

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=3e-32  Score=254.52  Aligned_cols=203  Identities=16%  Similarity=0.150  Sum_probs=176.3

Q ss_pred             HHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC---------HHHH
Q 043204          281 KSLINEALIRGGIPS-LASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM---------VDEA  350 (504)
Q Consensus       281 ~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a  350 (504)
                      ..+.+.+.+++..+. ...++.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         +++|
T Consensus        10 e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A   89 (501)
T 4g26_A           10 ENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRG   89 (501)
T ss_dssp             --------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHH
T ss_pred             HHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHH
Confidence            334444444444333 346788899999999999999999999999999999999999999987654         6889


Q ss_pred             HHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHH
Q 043204          351 LEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEML  430 (504)
Q Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  430 (504)
                      .++|++ |...|+.||..||+++|.+|++.|++++|.++|++|.+. |+.||..+|+++|.+|++.|++++|.++|++|.
T Consensus        90 ~~lf~~-M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           90 FDIFKQ-MIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF-GIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHH-HHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHH-HHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999998 889999999999999999999999999999999999998 999999999999999999999999999999999


Q ss_pred             hcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 043204          431 IRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCC  485 (504)
Q Consensus       431 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~  485 (504)
                      +.|+.||..+|++||.+|++.|++++|.+++++|.+.|..|+..||+.++..++.
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999988775

>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=99.98  E-value=6e-28  Score=222.61  Aligned_cols=378  Identities=15%  Similarity=0.064  Sum_probs=309.8

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK  130 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  130 (504)
                      +...+.+.|++++|.+.++.+.+.. |.+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|+
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            3556778899999999999988776 5566777888888899999999999998887765 4457788999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          131 LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      +++|...|+++....  +.+..+|..+..++.+.|++++|.+.|+++.+... .+...+..+...+...|++++|.+.|+
T Consensus        83 ~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (388)
T 1w3b_A           83 LQEAIEHYRHALRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            999999999887542  22455788899999999999999999999887632 234566777788888899999999998


Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          211 SMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      ++    .... +.+..+|..+..++...|++++|...|+++.+.+..                                 
T Consensus       160 ~a----l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~---------------------------------  201 (388)
T 1w3b_A          160 KA----IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN---------------------------------  201 (388)
T ss_dssp             HH----HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT---------------------------------
T ss_pred             HH----HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---------------------------------
Confidence            88    3432 225778888999999999999999999988876321                                 


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHH
Q 043204          291 GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVY  370 (504)
Q Consensus       291 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  370 (504)
                          +...+..+...+...|++++|...+++.....+. +..++..+...|...|++++|...|++++...  +.+..+|
T Consensus       202 ----~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~  274 (388)
T 1w3b_A          202 ----FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAY  274 (388)
T ss_dssp             ----CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SSCHHHH
T ss_pred             ----cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHH
Confidence                4567778888888999999999999999886533 67889999999999999999999999966543  3356789


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc
Q 043204          371 NILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS  450 (504)
Q Consensus       371 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  450 (504)
                      ..+..++.+.|++++|.+.++++.+.  .+.+..++..+...+.+.|++++|.+.++++.+.. +.+..++..+..++.+
T Consensus       275 ~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  351 (388)
T 1w3b_A          275 CNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQ  351 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH
Confidence            99999999999999999999999875  35577889999999999999999999999999863 4457789999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 043204          451 IGKQYEAVMWLEEMISQAKLPDI-SVWSSLVASV  483 (504)
Q Consensus       451 ~g~~~~a~~~~~~~~~~~~~p~~-~~~~~ll~~~  483 (504)
                      .|++++|.+.++++.+  ..|+. ..+..+...+
T Consensus       352 ~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~~~  383 (388)
T 1w3b_A          352 QGKLQEALMHYKEAIR--ISPTFADAYSNMGNTL  383 (388)
T ss_dssp             TTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHh--hCCCCHHHHHhHHHHH
Confidence            9999999999999995  45654 4555554443

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.98  E-value=7e-31  Score=245.33  Aligned_cols=187  Identities=12%  Similarity=0.127  Sum_probs=140.0

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC---------HHHHHHHHHHHHHHHhhCCCC
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR---------LNEATHLLYSMFWRISQKGSG  222 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  222 (504)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         ++.|.++|++|    ...|+.
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M----~~~G~~  102 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM----IVDKVV  102 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHH----HHTTCC
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHH----HHhCCC
Confidence            34666777777777777777777777777777777777777777765443         56677777777    677777


Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 043204          223 EDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAM  302 (504)
Q Consensus       223 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  302 (504)
                      ||..||+++|.+|++.|++++|.++|++|.+.|+.                                    ||..+|+.+
T Consensus       103 Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~------------------------------------Pd~~tyn~l  146 (501)
T 4g26_A          103 PNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQ------------------------------------PRLRSYGPA  146 (501)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC------------------------------------CCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC------------------------------------CccceehHH
Confidence            77777777777777777777777777777776654                                    677777777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 043204          303 AIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD  379 (504)
Q Consensus       303 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (504)
                      |.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|+.++|.+++++ |...+..|+..||+.++..++.
T Consensus       147 I~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~-Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          147 LFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQR-LRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH-HHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHH-HHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777777777777777777777777 7777777777777777777654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=4.5e-25  Score=211.57  Aligned_cols=450  Identities=10%  Similarity=-0.040  Sum_probs=282.1

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+.+.|++++|+..|+++.+..    |+..+|..+..++...|++++|...++++.+.+ +.+..++..+..+
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~----p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK----EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC----ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            34566788899999999999999999985    478899999999999999999999999999887 6677889999999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      +...|++++|...|+.+.+.+.. +......++..+........+.+.+..+...... |+...+..-............
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDF-NDASIEPMLERNLNKQAMSKLKEKFGDIDTATAT-PTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSC-CGGGTHHHHHHHHHHHHHHHHTTC----------------------------CCCC
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhccCChhhHHHhhccCCch
Confidence            99999999999999999887643 3333344444444433333333333211100000 000000000000000000000


Q ss_pred             HHHHHHHhhhCCC---------CCCHhhHHHHHHHHHh---cCCHHHHHHHHHHHHHHH---h--hCCC----CcCHHHH
Q 043204          170 ALHVFQEMDFQGC---------YPDRESYHILMKGLCN---DRRLNEATHLLYSMFWRI---S--QKGS----GEDIVIY  228 (504)
Q Consensus       170 a~~~~~~~~~~~~---------~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~---~--~~~~----~~~~~~~  228 (504)
                      ...+...+.....         +.+...+......+..   .|++++|...|+++....   .  ....    +.+..++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence            0000000000000         0012222222222222   444444444444442100   0  0000    1123344


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 043204          229 RTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYN  308 (504)
Q Consensus       229 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  308 (504)
                      ..+..++...|++++|...++++.+..  |. ...+..+...+...|+++.|...++.+...... +...+..+...+..
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~  316 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELF--PR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFI  316 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHC--CC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--cc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHH
Confidence            444444444444444444444444432  12 333333344444444444444444444433222 56678888888999


Q ss_pred             cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHH
Q 043204          309 EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVM  388 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  388 (504)
                      .|++++|...++++.+.... +...+..+...+...|++++|...+++++...  +.+...+..+...|...|++++|..
T Consensus       317 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~  393 (514)
T 2gw1_A          317 LQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF--PEAPEVPNFFAEILTDKNDFDKALK  393 (514)
T ss_dssp             TTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc--ccCHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999987544 67788899999999999999999999866554  3355688888999999999999999


Q ss_pred             HHHHHHHhcCCCCc----hhhHHHHHHHHhh---cCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHH
Q 043204          389 YLKKMSKQVGCVAN----GETYGILVDGLCR---DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWL  461 (504)
Q Consensus       389 ~~~~~~~~~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  461 (504)
                      .++++.+...-.++    ...+..+..+|..   .|++++|.+.++++.+.. +.+..++..+...|.+.|++++|.+.+
T Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  472 (514)
T 2gw1_A          394 QYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLF  472 (514)
T ss_dssp             HHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            99998865222222    3378889999999   999999999999998864 345677888999999999999999999


Q ss_pred             HHHHHcCCCCCHHHH
Q 043204          462 EEMISQAKLPDISVW  476 (504)
Q Consensus       462 ~~~~~~~~~p~~~~~  476 (504)
                      +++.+.  .|+....
T Consensus       473 ~~a~~~--~~~~~~~  485 (514)
T 2gw1_A          473 EESADL--ARTMEEK  485 (514)
T ss_dssp             HHHHHH--CSSHHHH
T ss_pred             HHHHHh--ccccHHH
Confidence            999965  4665443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.9e-24  Score=207.25  Aligned_cols=441  Identities=10%  Similarity=-0.033  Sum_probs=318.5

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ....+......+.+.|++++|...|+++.+.+  |+..++..+..++.+.|++++|+..|+.+.+.+ +.+..++..+..
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            45567788889999999999999999999876  688889999999999999999999999988876 345678889999


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      ++.+.|++++|...|+++....+  ++......++..+........+.+.+..+...+..|+...+..-...........
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGD--FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLP  159 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSS--CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCC
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCC--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCc
Confidence            99999999999999999876543  2333444455555444444444444443333322222222221111111111111


Q ss_pred             HHHHHHHHHHHHHhhCCC---------CcCHHHHHHHHHHHHh---cCchhHHHHHHHHHHH-----cCCCC-------C
Q 043204          204 EATHLLYSMFWRISQKGS---------GEDIVIYRTLLFALCD---QGKIQDAMQILEKILR-----KGLKA-------P  259 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~---------~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~-----~~~~~-------~  259 (504)
                      ....+...+    .....         +.+...+......+..   .|++++|...|+++.+     ....|       .
T Consensus       160 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (514)
T 2gw1_A          160 SVTSMASFF----GIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEK  235 (514)
T ss_dssp             CHHHHHHHH----TTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHH
T ss_pred             hhHHHHHHH----hhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChH
Confidence            111111111    11111         1124455555555554   8999999999999988     32222       3


Q ss_pred             cchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHH
Q 043204          260 KSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLA  339 (504)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  339 (504)
                      .......+...+...|+++.|...++.+......  ...+..+...+...|++++|...++++.+.... +...+..+..
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~  312 (514)
T 2gw1_A          236 LAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHH
Confidence            3445556677888999999999999999988655  788888899999999999999999999987543 6778899999


Q ss_pred             HHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcH
Q 043204          340 ALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRF  419 (504)
Q Consensus       340 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  419 (504)
                      .+...|++++|...+++++...  +.+...+..+...|...|++++|...++.+.+.  .+.+...+..+...|...|++
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~  388 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELD--PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDF  388 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCH
Confidence            9999999999999999966544  335668888999999999999999999999875  233567888999999999999


Q ss_pred             HHHHHHHHHHHhcCc-CCC----cchHHHHHHHHHc---cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchh
Q 043204          420 LEASRVLEEMLIRSY-WPC----VETYNVLIRGLCS---IGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLN  491 (504)
Q Consensus       420 ~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~  491 (504)
                      ++|.+.++++.+..- .++    ...|..+...+..   .|++++|.+.++++.+.. +.+...+..+...+...|+ ++
T Consensus       389 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~-~~  466 (514)
T 2gw1_A          389 DKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQED-ID  466 (514)
T ss_dssp             HHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcC-HH
Confidence            999999999987531 111    2388999999999   999999999999999753 3345677777787777766 99


Q ss_pred             HHHHHHHHhhc
Q 043204          492 VCRKTLEQLSS  502 (504)
Q Consensus       492 ~a~~~~~~~~~  502 (504)
                      +|...+++..+
T Consensus       467 ~A~~~~~~a~~  477 (514)
T 2gw1_A          467 EAITLFEESAD  477 (514)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>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=99.95  E-value=8.4e-24  Score=203.90  Aligned_cols=432  Identities=12%  Similarity=0.024  Sum_probs=319.6

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+.+.|++++|+..|+++.+..|.   +..+|..+..++.+.|++++|.+.|+++.+.+ +.+..++..+..+
T Consensus        27 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           27 QLKNRGNHFFTAKNFNEAIKYYQYAIELDPN---EPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHTTCCC-CHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCCC---CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4566778899999999999999999999887   88999999999999999999999999999887 6778889999999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC-----CCcchHHHHHHHHHHHhhc
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW-----EVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~  164 (504)
                      +...|++++|...|+.+ .....+.    ...+..+...+....|...++.+....     ...|+    ...+..+...
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~~~~~~----~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~  173 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SLNGDFD----GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPS----NTSLASFFGI  173 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCC----HHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHH-hcCCCCC----hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccch----HhHHHHHHHh
Confidence            99999999999999743 3332222    334556667777888999998886531     11222    3344555566


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHh-hHHHHHHHHH--------hcCCHHHHHHHHHHHHHHHhhCCCCc-C-----HHHHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRE-SYHILMKGLC--------NDRRLNEATHLLYSMFWRISQKGSGE-D-----IVIYR  229 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~~-~-----~~~~~  229 (504)
                      .+.+.+...+......  .+... ....+...+.        ..|++++|..+++++    ....... +     ..++.
T Consensus       174 ~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~----l~~~p~~~~~~~~~~~~~~  247 (537)
T 3fp2_A          174 FDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSL----LSANTVDDPLRENAALALC  247 (537)
T ss_dssp             SCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHH----HC--CCCHHHHHHHHHHHH
T ss_pred             cChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHH----HHHCCCcchhhHHHHHHHH
Confidence            6666666555444332  22222 2222222222        224788888888888    4443331 1     23566


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+...+...|++++|...++++.+..  |. ......+...+...|+++.|...+..+...... +...+..+...+...
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  323 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINLH--PT-PNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFIL  323 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CC-HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcC--CC-chHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhc
Confidence            67777888888899999998888763  34 555666677888888999999998888877554 677888888999999


Q ss_pred             CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHH
Q 043204          310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMY  389 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  389 (504)
                      |++++|...++++.+.... +...+..+...+...|++++|...+++++...  +.+...+..+...+...|++++|...
T Consensus       324 ~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          324 QDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            9999999999999887543 56788899999999999999999999866654  34566888889999999999999999


Q ss_pred             HHHHHHhcCCCCc----hhhHHHHHHHHhhc----------CcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHH
Q 043204          390 LKKMSKQVGCVAN----GETYGILVDGLCRD----------GRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQY  455 (504)
Q Consensus       390 ~~~~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  455 (504)
                      ++++.+...-.++    ...+..+..++...          |++++|...++++.+.. +.+...|..+...|.+.|+++
T Consensus       401 ~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~  479 (537)
T 3fp2_A          401 YDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKID  479 (537)
T ss_dssp             HHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHH
Confidence            9998765211111    11234455677777          99999999999999864 345678889999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 043204          456 EAVMWLEEMISQA  468 (504)
Q Consensus       456 ~a~~~~~~~~~~~  468 (504)
                      +|.+.|++..+..
T Consensus       480 ~A~~~~~~al~~~  492 (537)
T 3fp2_A          480 EAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999653

>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=99.94  E-value=3.5e-23  Score=194.85  Aligned_cols=341  Identities=11%  Similarity=0.001  Sum_probs=230.4

Q ss_pred             HHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHH
Q 043204           26 TALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKN  105 (504)
Q Consensus        26 ~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (504)
                      .+...|..+....|.   +...+..++..+.+.|++++|..+|+.+.+.. +.+..++..+..++...|++++|...|+.
T Consensus        10 ~~~~~~~~~~~~~p~---~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (450)
T 2y4t_A           10 GVDLGTENLYFQSMA---DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTK   85 (450)
T ss_dssp             -------------CH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccccccccccccHH---HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            344445555555444   66677777777777777777777777777654 55666777777777777777777777777


Q ss_pred             hhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchH---HHHHHH------------HHHHhhcCCHHHH
Q 043204          106 LSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRI---QSLNLL------------MDVLCQCRRSDLA  170 (504)
Q Consensus       106 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a  170 (504)
                      +.+.+. .+..++..+...|.+.|++++|...|+++....+  .+.   ..+..+            ...+...|++++|
T Consensus        86 al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A  162 (450)
T 2y4t_A           86 VIQLKM-DFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP--SENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAA  162 (450)
T ss_dssp             HHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--CChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            776552 3356677777777777777777777777765421  122   344444            4458889999999


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEK  250 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  250 (504)
                      ...|+++.+.. +.+..++..+..+|.+.|++++|...|+++.    ... +.+..++..+..+|...|++++|...|++
T Consensus       163 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          163 IAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAAS----KLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHH----HHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHH----HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999998764 3467888999999999999999999999883    332 33678899999999999999999999999


Q ss_pred             HHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcc
Q 043204          251 ILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPS  330 (504)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  330 (504)
                      +....  |........                 +..+.      .......+...+...|++++|...|+++.+.... +
T Consensus       237 ~~~~~--p~~~~~~~~-----------------~~~~~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~  290 (450)
T 2y4t_A          237 CLKLD--QDHKRCFAH-----------------YKQVK------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-I  290 (450)
T ss_dssp             HHHHC--TTCHHHHHH-----------------HHHHH------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-S
T ss_pred             HHHhC--CChHHHHHH-----------------HHHHH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-c
Confidence            98753  222221111                 00000      1122233467777788888888888888875422 2


Q ss_pred             ----hhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc-hhh
Q 043204          331 ----LVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-GET  405 (504)
Q Consensus       331 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~  405 (504)
                          ...+..+...+.+.|++++|...+++++...  +.+...|..+..+|...|++++|...++++.+.   .|+ ...
T Consensus       291 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~  365 (450)
T 2y4t_A          291 AEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH---NENDQQI  365 (450)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---SSSCHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CcchHHH
Confidence                3467777888888888888888888755543  345678888888888888888888888888753   444 344


Q ss_pred             HHHHH
Q 043204          406 YGILV  410 (504)
Q Consensus       406 ~~~l~  410 (504)
                      +..+.
T Consensus       366 ~~~l~  370 (450)
T 2y4t_A          366 REGLE  370 (450)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44444

>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=99.94  E-value=1.8e-23  Score=196.78  Aligned_cols=318  Identities=12%  Similarity=0.042  Sum_probs=253.2

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ...+..+...+.+.|++++|+.+|+++.+..|+   +..+|..+..++...|++++|...|+++.+.+ +.+..++..+.
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPD---NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            445677889999999999999999999998776   78999999999999999999999999999887 66788899999


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccH---HHHHHH------------HHHHHhcchHHHHHHHHHHhhcCCCCcchHH
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWT---QSFNTL------------LKEMVKESKLEAAHILFLRSCYGWEVKSRIQ  152 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (504)
                      .+|.+.|++++|.+.|+.+.+.+.. +.   ..+..+            ...+...|++++|...|+++....  +.+..
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~  178 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--VWDAE  178 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChH
Confidence            9999999999999999999887632 23   455554            445889999999999999988653  33567


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTL-  231 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l-  231 (504)
                      .+..+..+|.+.|++++|.++|+++.+.. +.+..++..+..++...|++++|...|+++    ..... .+...+..+ 
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~p-~~~~~~~~~~  252 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVREC----LKLDQ-DHKRCFAHYK  252 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhCC-ChHHHHHHHH
Confidence            88999999999999999999999998764 347889999999999999999999999998    43322 234444444 


Q ss_pred             -----------HHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHH
Q 043204          232 -----------LFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS  300 (504)
Q Consensus       232 -----------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  300 (504)
                                 ...+...|++++|...|+++.+...  .+...                               ....+.
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p--~~~~~-------------------------------~~~~~~  299 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP--SIAEY-------------------------------TVRSKE  299 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC--SSHHH-------------------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--cchHH-------------------------------HHHHHH
Confidence                       7788888888888888888877531  11000                               034667


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHH
Q 043204          301 AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILL  374 (504)
Q Consensus       301 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  374 (504)
                      .+...+.+.|++++|...++++.+..+ .+...|..+..+|...|++++|...+++++...  +-+...+..+.
T Consensus       300 ~l~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~  370 (450)
T 2y4t_A          300 RICHCFSKDEKPVEAIRVCSEVLQMEP-DNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN--ENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cchHHHHHHHH
Confidence            777888888999999999998887642 267888888999999999999999998855532  22344444444

>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=99.93  E-value=9e-23  Score=196.67  Aligned_cols=433  Identities=9%  Similarity=-0.021  Sum_probs=320.7

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...|..+...+.+.|++++|.+.|+++.+.. +.+..++..+..+|.+.|++++|++.|+.+.+.+ +.+..++..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4567888899999999999999999999887 6788899999999999999999999999998876 3457788999999


Q ss_pred             HHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC--CCCCHhhHHHHHHHHHhcCCH
Q 043204          125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQG--CYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      +...|++++|...|+.+...    |+..  ...+..+...+....|...++.+....  ..+........+..+....+.
T Consensus       103 ~~~~g~~~~A~~~~~~~~~~----~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSLN----GDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC-----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHcCCHHHHHHHHHHHhcC----CCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            99999999999999754322    2211  233445566677788999999986641  011111223334445556666


Q ss_pred             HHHHHHHHHHHHHHhhCCCCcCHH-HHHHHHHHHHh--------cCchhHHHHHHHHHHHcCCCCCcch-------hhhh
Q 043204          203 NEATHLLYSMFWRISQKGSGEDIV-IYRTLLFALCD--------QGKIQDAMQILEKILRKGLKAPKSR-------RHRI  266 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~-------~~~~  266 (504)
                      +.+...+...      ....+... ....+...+..        .|++++|..+++++.+..  |.+..       ....
T Consensus       177 ~~~~~~~~~~------~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~  248 (537)
T 3fp2_A          177 HLEVSSVNTS------SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCY  248 (537)
T ss_dssp             HHHHHTSCCC------CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhc------cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHH
Confidence            6665554322      12222222 33333333322        247899999999998764  33322       3444


Q ss_pred             hccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC
Q 043204          267 DLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM  346 (504)
Q Consensus       267 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  346 (504)
                      +...+...|+++.|...++.+.....  +...+..+...+...|++++|...++++.+.... +..++..+...+...|+
T Consensus       249 ~g~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          249 TGIFHFLKNNLLDAQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCC
Confidence            56677889999999999999998754  4777888888888889999999999999987543 67889999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHH
Q 043204          347 VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVL  426 (504)
Q Consensus       347 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  426 (504)
                      +++|...+++++...  +.+...+..+..+|...|++++|...++++.+.  .+.+...+..+...|...|++++|.+.+
T Consensus       326 ~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~  401 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQY  401 (537)
T ss_dssp             HHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            999999999966654  334568888999999999999999999999876  2345668889999999999999999999


Q ss_pred             HHHHhcCc-----CCCcchHHHHHHHHHcc----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchh
Q 043204          427 EEMLIRSY-----WPCVETYNVLIRGLCSI----------GKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLN  491 (504)
Q Consensus       427 ~~~~~~~~-----~~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~  491 (504)
                      +++.+..-     ......+......+...          |++++|...++++.+.. +.+...+..+...+...|+ ++
T Consensus       402 ~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~-~~  479 (537)
T 3fp2_A          402 DIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEK-ID  479 (537)
T ss_dssp             HHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc-HH
Confidence            99887531     01112234445677777          99999999999999753 3345777788888777776 99


Q ss_pred             HHHHHHHHhhc
Q 043204          492 VCRKTLEQLSS  502 (504)
Q Consensus       492 ~a~~~~~~~~~  502 (504)
                      +|.+.+++..+
T Consensus       480 ~A~~~~~~al~  490 (537)
T 3fp2_A          480 EAIELFEDSAI  490 (537)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=9.7e-20  Score=165.80  Aligned_cols=341  Identities=13%  Similarity=0.019  Sum_probs=203.1

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      ..+..+...+...|++++|+..|+++.+..|.   +..++..+...+...|++++|...|+++.+.. +.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~---~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPD---NYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc---cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34566778888899999999999999988776   77888888899999999999999999988775 556778888889


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCC--ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCV--NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      .+...|++++|...|+...+....  .+...+..+...+       .                 ...+..+...+...|+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~-------~-----------------~~~~~~~a~~~~~~~~  135 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKAD-------E-----------------MQRLRSQALDAFDGAD  135 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHH-------H-----------------HHHHHHHHHHHHHTTC
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHH-------H-----------------HHHHHHHHHHHHHccC
Confidence            999999999999999988876531  1233333331110       0                 0112233445556666


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      +++|.+.++++.+.. +.+...+..+...+...|++++|...++++    .... +.+..++..+...+...|++++|..
T Consensus       136 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~----~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  209 (359)
T 3ieg_A          136 YTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAA----SKLK-SDNTEAFYKISTLYYQLGDHELSLS  209 (359)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HTTC-SCCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHH----HHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            666666666665543 224455556666666666666666666655    3322 2245566666666666666666666


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      .+++..+..  |............                       ........+...+...|++++|...++++.+..
T Consensus       210 ~~~~a~~~~--~~~~~~~~~~~~~-----------------------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  264 (359)
T 3ieg_A          210 EVRECLKLD--QDHKRCFAHYKQV-----------------------KKLNKLIESAEELIRDGRYTDATSKYESVMKTE  264 (359)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHH-----------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhC--ccchHHHHHHHHH-----------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            666666542  2222222111000                       011222233444555566666666666665543


Q ss_pred             CCcch----hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc
Q 043204          327 FWPSL----VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN  402 (504)
Q Consensus       327 ~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~  402 (504)
                      .. +.    ..+..+...+...|++++|...+++++...  +.+..++..+..+|...|++++|.+.|++..+.   .|+
T Consensus       265 ~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~---~p~  338 (359)
T 3ieg_A          265 PS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH---NEN  338 (359)
T ss_dssp             CS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CTT
T ss_pred             CC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCC
Confidence            22 11    123345556666666666666666644432  234556666666666666666666666666642   333


Q ss_pred             -hhhHHHHHHHHh
Q 043204          403 -GETYGILVDGLC  414 (504)
Q Consensus       403 -~~~~~~l~~~~~  414 (504)
                       ...+..+..+..
T Consensus       339 ~~~~~~~l~~~~~  351 (359)
T 3ieg_A          339 DQQIREGLEKAQR  351 (359)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHH
Confidence             334444444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.89  E-value=8e-19  Score=168.21  Aligned_cols=421  Identities=9%  Similarity=0.016  Sum_probs=212.7

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .|..++. +.+.|++++|..+|+++.+..|.   +...|..++..+.+.|++++|..+|+++....  |+...|...+..
T Consensus        15 ~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~---~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~   88 (530)
T 2ooe_A           15 AWSILIR-EAQNQPIDKARKTYERLVAQFPS---SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSY   88 (530)
T ss_dssp             HHHHHHH-HHHSSCHHHHHHHHHHHHTTCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHH
T ss_pred             HHHHHHH-HHHhCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHH
Confidence            4445555 34556666666666666666555   55566666666666666666666666666553  355555555432


Q ss_pred             H-HhcCChhHHHH----HHHHhhh-CCCC-ccHHHHHHHHHHHHh---------cchHHHHHHHHHHhhcCCCCcchHHH
Q 043204           90 Y-ARAGQLNEAVS----LFKNLSQ-FNCV-NWTQSFNTLLKEMVK---------ESKLEAAHILFLRSCYGWEVKSRIQS  153 (504)
Q Consensus        90 ~-~~~~~~~~a~~----~~~~~~~-~~~~-~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (504)
                      . ...|+.+.|.+    +|+...+ .|.. ++...|...+....+         .|+++.|..+|++.... +..+....
T Consensus        89 ~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~-P~~~~~~~  167 (530)
T 2ooe_A           89 VRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN-PMINIEQL  167 (530)
T ss_dssp             HHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS-CCTTHHHH
T ss_pred             HHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc-hhhhHHHH
Confidence            2 23455555443    4444332 1222 223444444444433         45555555555555542 11111112


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHH--hhCC---CCcC----
Q 043204          154 LNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRI--SQKG---SGED----  224 (504)
Q Consensus       154 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~---~~~~----  224 (504)
                      |..........|.                    .+...++.  ...++++.|..++.......  .+..   +.|+    
T Consensus       168 ~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~  225 (530)
T 2ooe_A          168 WRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQ  225 (530)
T ss_dssp             HHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CC
T ss_pred             HHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChh
Confidence            2111110000000                    00000110  12345566666655431100  1111   2332    


Q ss_pred             ----HHHHHHHHHHHHhc----Cch----hHHHHHHHHHHHcCCCCCcchhhhhhccccCC-------CCChH-------
Q 043204          225 ----IVIYRTLLFALCDQ----GKI----QDAMQILEKILRKGLKAPKSRRHRIDLCPCND-------GEDIE-------  278 (504)
Q Consensus       225 ----~~~~~~l~~~~~~~----g~~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~-------  278 (504)
                          ...|...+......    ++.    ..+..+|++.+..  .|.....+...+..+..       .|+++       
T Consensus       226 ~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~  303 (530)
T 2ooe_A          226 EAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSD  303 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhH
Confidence                23444443322221    122    3556677776664  23444444443444332       56655       


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcc-hhhHHHHHHHHhcCCCHHHHHHHHHHH
Q 043204          279 GAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPS-LVMYEAKLAALFKDGMVDEALEVIEEE  357 (504)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  357 (504)
                      .|..++++.++.-...+...|..++..+.+.|++++|..+|+++.+.... + ...|...+..+.+.|++++|.++|+++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~A  382 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKA  382 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            66666666664211124566666666666677777777777777764321 2 236666666666777777777777775


Q ss_pred             HhcCCCCccHHHHHHHHHH-HHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcC-cC
Q 043204          358 MVKGTFVPTVRVYNILLKG-LCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRS-YW  435 (504)
Q Consensus       358 ~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  435 (504)
                      +....  .+...|...... +...|++++|..+|+...+..  +.+...|..++..+.+.|+.++|..+|++....+ ..
T Consensus       383 l~~~~--~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~  458 (530)
T 2ooe_A          383 REDAR--TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  458 (530)
T ss_dssp             HTCTT--CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSC
T ss_pred             HhccC--CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCC
Confidence            54322  122222222111 234677777777777766541  2245666777777777777777777777776653 11


Q ss_pred             CC--cchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          436 PC--VETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       436 ~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      |+  ...|...+......|+.+.+..+.+++.+
T Consensus       459 ~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          459 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             GGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            21  22566666666667777777777777664

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=5.9e-19  Score=160.60  Aligned_cols=347  Identities=11%  Similarity=0.014  Sum_probs=243.9

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      ++..+..+...+...|++++|...|+.+.+.. +.+..++..+...+...|++++|...|+.+.+... .+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHH
Confidence            44556667777777777777777777777665 55566777777777777777777777777766542 23456666667


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCc-chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVK-SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      .+...|++++|...|++.....+.. .+...+..+...+.                       ...+..+...+...|++
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            7777777777777777665431100 12222222221110                       11233446778899999


Q ss_pred             HHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHH
Q 043204          203 NEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKS  282 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  282 (504)
                      ++|...++++    .+.. +.+...+..+..++...|++++|...++++.+.  .|........+...+...|+++.|..
T Consensus       137 ~~A~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~  209 (359)
T 3ieg_A          137 TAAITFLDKI----LEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL--KSDNTEAFYKISTLYYQLGDHELSLS  209 (359)
T ss_dssp             HHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHH----HHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999998    4433 336788999999999999999999999999876  46677777778888899999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          283 LINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                      .++...+.... +...+.                 .+..+.      .......+...+.+.|++++|...+++++....
T Consensus       210 ~~~~a~~~~~~-~~~~~~-----------------~~~~~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  265 (359)
T 3ieg_A          210 EVRECLKLDQD-HKRCFA-----------------HYKQVK------KLNKLIESAEELIRDGRYTDATSKYESVMKTEP  265 (359)
T ss_dssp             HHHHHHHHCTT-CHHHHH-----------------HHHHHH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhhCcc-chHHHH-----------------HHHHHH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            99999876433 222111                 111111      122334456778899999999999999666553


Q ss_pred             CCccH--HHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCC-cc
Q 043204          363 FVPTV--RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPC-VE  439 (504)
Q Consensus       363 ~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~  439 (504)
                      ..+..  ..+..+..++...|++++|...+++..+.  .+.+..++..+..+|...|++++|.+.|+++.+..  |+ ..
T Consensus       266 ~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~  341 (359)
T 3ieg_A          266 SVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN--ENDQQ  341 (359)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHH
T ss_pred             CchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCChH
Confidence            22222  23556778999999999999999999875  23367889999999999999999999999999864  54 45


Q ss_pred             hHHHHHHHHHc
Q 043204          440 TYNVLIRGLCS  450 (504)
Q Consensus       440 ~~~~l~~~~~~  450 (504)
                      .+..+..+...
T Consensus       342 ~~~~l~~~~~~  352 (359)
T 3ieg_A          342 IREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            56666655543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=6.3e-18  Score=160.31  Aligned_cols=366  Identities=11%  Similarity=-0.009  Sum_probs=247.8

Q ss_pred             hHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc----cCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh----cCCh
Q 043204           25 LTALKIFKEAKEKYPNYRHNGPVYASMIGILSE----SNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR----AGQL   96 (504)
Q Consensus        25 ~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~   96 (504)
                      ..++..++...+.  +   +..++..+...|..    .+++++|..+|++..+.|   +...+..+...|..    .+++
T Consensus        24 ~~~~~~~~~~a~~--g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~   95 (490)
T 2xm6_A           24 NVNLEQLKQKAES--G---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDY   95 (490)
T ss_dssp             -CCHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             hHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence            3456667666665  4   78888888888887    889999999999988765   56677788888888    8899


Q ss_pred             hHHHHHHHHhhhCCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh----cCCHH
Q 043204           97 NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ----CRRSD  168 (504)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~  168 (504)
                      ++|.+.|+...+.+   +...+..|...|..    .+++++|...|++.....    +...+..|...|..    .++.+
T Consensus        96 ~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~d~~  168 (490)
T 2xm6_A           96 AQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG----RDSGQQSMGDAYFEGDGVTRDYV  168 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHH
Confidence            99999999988765   34566777788887    788999999999887652    34566777777776    78899


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCc
Q 043204          169 LALHVFQEMDFQGCYPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD----QGK  240 (504)
Q Consensus       169 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  240 (504)
                      +|.+.|++..+.|   +...+..+...|..    .+++++|..+|++.    .+.+   +...+..+...|..    .++
T Consensus       169 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a----~~~~---~~~a~~~lg~~y~~g~g~~~~  238 (490)
T 2xm6_A          169 MAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKS----ATSG---DELGQLHLADMYYFGIGVTQD  238 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH----HHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHH----HHCC---CHHHHHHHHHHHHcCCCCCCC
Confidence            9999999888764   67778888888877    78899999998887    4543   45677777777775    677


Q ss_pred             hhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCChhHHH
Q 043204          241 IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYN----EGRIVEGD  316 (504)
Q Consensus       241 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~  316 (504)
                      +++|.++|++..+.+                                       +...+..+...+..    .++.++|.
T Consensus       239 ~~~A~~~~~~a~~~~---------------------------------------~~~a~~~lg~~y~~g~~~~~d~~~A~  279 (490)
T 2xm6_A          239 YTQSRVLFSQSAEQG---------------------------------------NSIAQFRLGYILEQGLAGAKEPLKAL  279 (490)
T ss_dssp             HHHHHHHHHHHHTTT---------------------------------------CHHHHHHHHHHHHHTTTSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHCC---------------------------------------CHHHHHHHHHHHHCCCCCCCCHHHHH
Confidence            888888888776643                                       22233333334444    45666666


Q ss_pred             HHHHHHHHCCCCcchhhHHHHHHHHhcC-----CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC---ChHHHHH
Q 043204          317 KVLDEMRTKGFWPSLVMYEAKLAALFKD-----GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG---NSAVAVM  388 (504)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~  388 (504)
                      ..|++..+.|   +...+..+...|...     +++++|...|+++... +   +...+..+...|...|   ++++|.+
T Consensus       280 ~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y~~~g~~~~~~~A~~  352 (490)
T 2xm6_A          280 EWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAIYFRLGSEEEHKKAVE  352 (490)
T ss_dssp             HHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHSCCHHHHHHHHH
T ss_pred             HHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHHHHhCCCcccHHHHHH
Confidence            6666665543   334455555555554     6666666666663332 2   3334455555555544   5566666


Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc----cCCHHHHHHH
Q 043204          389 YLKKMSKQVGCVANGETYGILVDGLCR----DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS----IGKQYEAVMW  460 (504)
Q Consensus       389 ~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  460 (504)
                      +|++..+.    .+...+..|...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|.+.
T Consensus       353 ~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  425 (490)
T 2xm6_A          353 WFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAW  425 (490)
T ss_dssp             HHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            66666553    244555566666665    566666666666666654   34555556666655    5666666666


Q ss_pred             HHHHHHcC
Q 043204          461 LEEMISQA  468 (504)
Q Consensus       461 ~~~~~~~~  468 (504)
                      |++..+.+
T Consensus       426 ~~~A~~~~  433 (490)
T 2xm6_A          426 FDTASTND  433 (490)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHCC
Confidence            66666554

>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=99.87  E-value=5.1e-19  Score=159.00  Aligned_cols=195  Identities=12%  Similarity=0.029  Sum_probs=95.3

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+++|+++.+..|.   +...+..++..+...|++++|..+++++.+.. +.+...+..+...
T Consensus        24 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~---~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           24 VVVSLAERHYYNCDFKMCYKLTSVVMEKDPF---HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            3444445555555555555555555555443   44444445555555555555555555555543 3344455555555


Q ss_pred             HHhcC-ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           90 YARAG-QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        90 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                      +...| ++++|.+.|+...+.+. .+...+..+...+...|++++|...|++.....+.  +...+..+...|...|+++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG--CHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT--CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc--cHHHHHHHHHHHHHHhhHH
Confidence            55555 55555555555554432 22344445555555555555555555554432111  1223333444455555555


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          169 LALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       169 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      +|.+.|++..+.. +.+...+..+...+...|++++|...++++
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  219 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDA  219 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            5555555544432 123344444444455555555555555444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.87  E-value=1.8e-17  Score=157.23  Aligned_cols=350  Identities=12%  Similarity=0.051  Sum_probs=276.6

Q ss_pred             CCchHHHHHHHh----cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc----cCChhHHHHHHHHhhcCCCCccH
Q 043204            9 LTPTYLSQIIKK----QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSE----SNRITEMKEVIDQMKGDSCECKD   80 (504)
Q Consensus         9 ~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   80 (504)
                      .++..+...|..    .+++++|+..|++..+.  +   +..++..|...|..    .+++++|.++|++..+.|   ++
T Consensus        40 ~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~--~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           40 KAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ--G---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            344556677777    88999999999999987  5   78888899999988    899999999999998865   56


Q ss_pred             HHHHHHHHHHHh----cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHH
Q 043204           81 SVFATAIRTYAR----AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQ  152 (504)
Q Consensus        81 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  152 (504)
                      ..+..+...|..    .+++++|.+.|+...+.+   +...+..|...|..    .++.++|...|++.....    +..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~----~~~  184 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG----NVW  184 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHH
Confidence            677778888888    789999999999998876   35667788888887    789999999999987652    456


Q ss_pred             HHHHHHHHHhh----cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcC
Q 043204          153 SLNLLMDVLCQ----CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGED  224 (504)
Q Consensus       153 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  224 (504)
                      .+..+...|..    .++.++|.+.|++..+.|   +...+..+...|..    .+++++|..+|++.    .+.+   +
T Consensus       185 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a----~~~~---~  254 (490)
T 2xm6_A          185 SCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQS----AEQG---N  254 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH----HTTT---C
T ss_pred             HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH----HHCC---C
Confidence            77888888887    899999999999998864   66778888888876    88999999999988    5543   4


Q ss_pred             HHHHHHHHHHHHh----cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHH
Q 043204          225 IVIYRTLLFALCD----QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS  300 (504)
Q Consensus       225 ~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  300 (504)
                      ...+..+...|..    .++.++|.++|++..+.+                                       +...+.
T Consensus       255 ~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---------------------------------------~~~a~~  295 (490)
T 2xm6_A          255 SIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---------------------------------------NSDGQY  295 (490)
T ss_dssp             HHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---------------------------------------CHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---------------------------------------CHHHHH
Confidence            5666677777776    778888888888776542                                       233444


Q ss_pred             HHHHHHHhc-----CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCC---CHHHHHHHHHHHHhcCCCCccHHHHHH
Q 043204          301 AMAIDLYNE-----GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDG---MVDEALEVIEEEMVKGTFVPTVRVYNI  372 (504)
Q Consensus       301 ~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~  372 (504)
                      .+...+...     ++.++|...|++..+.|   +...+..+...|...|   +.++|.+.|+++...    .+...+..
T Consensus       296 ~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~  368 (490)
T 2xm6_A          296 YLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFN  368 (490)
T ss_dssp             HHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHH
T ss_pred             HHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHH
Confidence            455555555     78888888888888875   4556677777776655   788888888885543    25667777


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHHHHHHHHHHHhcC
Q 043204          373 LLKGLCD----AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       373 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  433 (504)
                      +...|..    .+++++|.+.|++..+. +   +...+..|...|..    .++.++|.+.|++..+.+
T Consensus       369 Lg~~y~~g~g~~~~~~~A~~~~~~A~~~-~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          369 LGNALLQGKGVKKDEQQAAIWMRKAAEQ-G---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHhC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            7777877    78899999999888775 3   46677778888887    788999999999888875

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.87  E-value=7.7e-18  Score=161.36  Aligned_cols=387  Identities=12%  Similarity=0.039  Sum_probs=231.1

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHH-hccCChhHHHH----HHHHhhc-CCCC-ccHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGIL-SESNRITEMKE----VIDQMKG-DSCE-CKDS   81 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~-~~~~-~~~~   81 (504)
                      ..|..++..+.+.|++++|..+|+++.+..|    +...|...+... ...|+.+.|.+    +|+.... .|.. ++..
T Consensus        47 ~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p----~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~  122 (530)
T 2ooe_A           47 RFWKLYIEAEIKAKNYDKVEKLFQRCLMKVL----HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQ  122 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTCC----CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----ChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHH
Confidence            3577888999999999999999999998754    666787777533 35677777765    7776654 2433 3556


Q ss_pred             HHHHHHHHHHh---------cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHH
Q 043204           82 VFATAIRTYAR---------AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQ  152 (504)
Q Consensus        82 ~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (504)
                      .|...+....+         .|+++.|..+|++..+....+....|..........+. ..+                  
T Consensus       123 ~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~------------------  183 (530)
T 2ooe_A          123 IWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLA------------------  183 (530)
T ss_dssp             HHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHH------------------
T ss_pred             HHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHH------------------
Confidence            78888877655         68999999999999883212222333333221111110 000                  


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHh------hhCC---CCCC--------HhhHHHHHHHHHhc----CCH----HHHHH
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEM------DFQG---CYPD--------RESYHILMKGLCND----RRL----NEATH  207 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~------~~~~---~~p~--------~~~~~~l~~~~~~~----~~~----~~a~~  207 (504)
                        ..++.  .+.+++..|..++..+      .+..   ++|+        ...|...+......    ++.    +.+..
T Consensus       184 --~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~  259 (530)
T 2ooe_A          184 --KKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMF  259 (530)
T ss_dssp             --HHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHH
T ss_pred             --HHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHH
Confidence              00000  0122333333333321      1110   1222        11222222211110    111    24444


Q ss_pred             HHHHHHHHHhhCCCCcCHHHHHHHHHHHHh-------cCchh-------HHHHHHHHHHHcCCCCCcchhhhhhccccCC
Q 043204          208 LLYSMFWRISQKGSGEDIVIYRTLLFALCD-------QGKIQ-------DAMQILEKILRKGLKAPKSRRHRIDLCPCND  273 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  273 (504)
                      +|++..    .. .+.+...|..++..+.+       .|+++       +|..+|++..+. ..|.....+...+.++..
T Consensus       260 ~y~~al----~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          260 AYEQCL----LV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHH----HH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHH----Hh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHh
Confidence            555542    21 11234455555554443       45544       555555555431 133444444444455555


Q ss_pred             CCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHH-HhcCCCHHHHH
Q 043204          274 GEDIEGAKSLINEALIRGGIPS-LASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAA-LFKDGMVDEAL  351 (504)
Q Consensus       274 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  351 (504)
                      .|+++.|..+|+++++.... + ...|...+..+.+.|++++|..+|++..+.... +...+...... +...|+.++|.
T Consensus       334 ~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             cCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            56666666666666554221 2 247777888888889999999999999886322 23333322222 34689999999


Q ss_pred             HHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc--hhhHHHHHHHHhhcCcHHHHHHHHHHH
Q 043204          352 EVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN--GETYGILVDGLCRDGRFLEASRVLEEM  429 (504)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~  429 (504)
                      .+|+.++...  +.+...|..++..+.+.|+.++|..+|++........|+  ...|...+......|+.+.+..+.+++
T Consensus       412 ~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          412 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999877764  345778889999999999999999999999876333343  347888888888899999999999998


Q ss_pred             Hhc
Q 043204          430 LIR  432 (504)
Q Consensus       430 ~~~  432 (504)
                      .+.
T Consensus       490 ~~~  492 (530)
T 2ooe_A          490 FTA  492 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            875

>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=99.85  E-value=4.7e-18  Score=152.71  Aligned_cols=292  Identities=10%  Similarity=-0.081  Sum_probs=214.7

Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          150 RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       150 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      +...+..+...+...|++++|.++|+++.+.. +.+...+..++..+...|++++|..+++++    .... +.+...+.
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~----~~~~-~~~~~~~~   94 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKL----VDLY-PSNPVSWF   94 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHH----HHHC-TTSTHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHH----HHhC-cCCHHHHH
Confidence            34455667777777888888888888877654 234556666777778888888888888877    3332 22456777


Q ss_pred             HHHHHHHhcC-chhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 043204          230 TLLFALCDQG-KIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYN  308 (504)
Q Consensus       230 ~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  308 (504)
                      .+...+...| ++++|.+.|+++.+...                                     .+...+..+...+..
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~~-------------------------------------~~~~~~~~l~~~~~~  137 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLEK-------------------------------------TYGPAWIAYGHSFAV  137 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTCT-------------------------------------TCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhCC-------------------------------------ccHHHHHHHHHHHHH
Confidence            7778888888 78888888888776432                                     145567777777888


Q ss_pred             cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHH
Q 043204          309 EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVM  388 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  388 (504)
                      .|++++|...++++.+.... +...+..+...|...|++++|...+++++...  +.+...+..+...+...|++++|..
T Consensus       138 ~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~  214 (330)
T 3hym_B          138 ESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEK  214 (330)
T ss_dssp             HTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHH
Confidence            88888888888888876433 45666778888888899999998888855443  4456778888888889999999999


Q ss_pred             HHHHHHHhcC-------CCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHH
Q 043204          389 YLKKMSKQVG-------CVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWL  461 (504)
Q Consensus       389 ~~~~~~~~~~-------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  461 (504)
                      .++++.+...       .+....++..+..+|...|++++|...+++..+.. +.+...|..+...+...|++++|.+.+
T Consensus       215 ~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  293 (330)
T 3hym_B          215 WFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYF  293 (330)
T ss_dssp             HHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHH
Confidence            9888876421       13335678888899999999999999999988864 346778888889999999999999999


Q ss_pred             HHHHHcCCCCC-HHHHHHHHHHHhcCCCch
Q 043204          462 EEMISQAKLPD-ISVWSSLVASVCCNTADL  490 (504)
Q Consensus       462 ~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~  490 (504)
                      +++.+  +.|+ ...+..+..++....++.
T Consensus       294 ~~al~--~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          294 HTALG--LRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HTTTT--TCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHc--cCCCchHHHHHHHHHHHHHhCch
Confidence            99884  4454 456666666654555533

>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=99.84  E-value=1.1e-18  Score=159.47  Aligned_cols=316  Identities=12%  Similarity=-0.033  Sum_probs=197.7

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHH-HHHHhhcCCCC-c--cHHHHHHHHHHHHhcCC
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKE-VIDQMKGDSCE-C--KDSVFATAIRTYARAGQ   95 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~   95 (504)
                      ..+.++.+...|+.+.+..|    +         ++...|++++|.+ .+++....... |  +...+..+...+.+.|+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~----~---------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~   79 (368)
T 1fch_A           13 DVDFWDKLQAELEEMAKRDA----E---------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGD   79 (368)
T ss_dssp             ----------------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTC
T ss_pred             CcccHHHHHHHHHHHHcCCc----h---------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCC
Confidence            34455666666666655422    1         1223366777777 77765544311 1  23456677777777777


Q ss_pred             hhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHH
Q 043204           96 LNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQ  175 (504)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  175 (504)
                      +++|...|+.+.+.. +.+..++..+...+...|++++|...|+++....  +.+..++..+..+|...|++++|.+.|+
T Consensus        80 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~  156 (368)
T 1fch_A           80 LPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNESLQRQACEILR  156 (368)
T ss_dssp             HHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            777777777777655 3345667777777777777777777777776542  2245567777777777788888888777


Q ss_pred             HhhhCCCCCCHhhHHH---------------HHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC-cCHHHHHHHHHHHHhcC
Q 043204          176 EMDFQGCYPDRESYHI---------------LMKGLCNDRRLNEATHLLYSMFWRISQKGSG-EDIVIYRTLLFALCDQG  239 (504)
Q Consensus       176 ~~~~~~~~p~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g  239 (504)
                      ++...... +...+..               .+..+...|++++|...++++.    ..... ++..++..+..+|...|
T Consensus       157 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~----~~~p~~~~~~~~~~l~~~~~~~g  231 (368)
T 1fch_A          157 DWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAV----RLDPTSIDPDVQCGLGVLFNLSG  231 (368)
T ss_dssp             HHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHH----HHSTTSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHH----HhCcCcccHHHHHHHHHHHHHcC
Confidence            77765322 2222211               2333448889999999998883    33222 25788888899999999


Q ss_pred             chhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 043204          240 KIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVL  319 (504)
Q Consensus       240 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  319 (504)
                      ++++|...++++.+...                                     .+...+..+...+...|++++|...|
T Consensus       232 ~~~~A~~~~~~al~~~~-------------------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~  274 (368)
T 1fch_A          232 EYDKAVDCFTAALSVRP-------------------------------------NDYLLWNKLGATLANGNQSEEAVAAY  274 (368)
T ss_dssp             CHHHHHHHHHHHHHHCT-------------------------------------TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCc-------------------------------------CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999887632                                     14567777778888888888888888


Q ss_pred             HHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCC---------ccHHHHHHHHHHHHhcCChHHHHHHH
Q 043204          320 DEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFV---------PTVRVYNILLKGLCDAGNSAVAVMYL  390 (504)
Q Consensus       320 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~  390 (504)
                      +++.+..+ .+...+..+..+|.+.|++++|...|++++....-.         ....+|..+..+|...|++++|..++
T Consensus       275 ~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  353 (368)
T 1fch_A          275 RRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAAD  353 (368)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             HHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhH
Confidence            88877643 367788888888888888888888888755432111         11578888888999999999988887


Q ss_pred             HHHH
Q 043204          391 KKMS  394 (504)
Q Consensus       391 ~~~~  394 (504)
                      .+..
T Consensus       354 ~~~l  357 (368)
T 1fch_A          354 ARDL  357 (368)
T ss_dssp             TTCH
T ss_pred             HHHH
Confidence            7543

>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=99.84  E-value=1.9e-18  Score=157.84  Aligned_cols=295  Identities=10%  Similarity=-0.055  Sum_probs=172.0

Q ss_pred             HHhcCChhHHHH-HHHHHHhcCCCCCc-chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC
Q 043204           18 IKKQKSPLTALK-IFKEAKEKYPNYRH-NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ   95 (504)
Q Consensus        18 ~~~~~~~~~A~~-~~~~~~~~~p~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (504)
                      +...|++++|+. .|++..+..|.... +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344566666666 66666655443111 24456666666666777777777777666655 4555666666666677777


Q ss_pred             hhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHH-------------HHHHHHh
Q 043204           96 LNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLN-------------LLMDVLC  162 (504)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------~l~~~~~  162 (504)
                      +++|...|+.+.+.+ +.+..++..+...+...|++++|...++++....+..+......             ..+..+.
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            777777777666554 23455666666666677777777777766654432222111100             0122223


Q ss_pred             hcCCHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCch
Q 043204          163 QCRRSDLALHVFQEMDFQGCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKI  241 (504)
Q Consensus       163 ~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  241 (504)
                      ..|++++|...|+++.+..... +..++..+...+...|++++|...++++    .... +.+..++..+..++...|++
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a----l~~~-~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAA----LSVR-PNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhC-cCCHHHHHHHHHHHHHcCCH
Confidence            6667777777777666543111 3566666666677777777777777666    2221 22455666666777777777


Q ss_pred             hHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC----------ChhhHHHHHHHHHhcCC
Q 043204          242 QDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP----------SLASYSAMAIDLYNEGR  311 (504)
Q Consensus       242 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~----------~~~~~~~ll~~~~~~~~  311 (504)
                      ++|...|+++.+.  .|.....+..+..++...|+++.|...++.+.......          ....|..+..++...|+
T Consensus       268 ~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  345 (368)
T 1fch_A          268 EEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQ  345 (368)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCC
Confidence            7777777776664  34455555555666666677777777776666442221          25678888888888888


Q ss_pred             hhHHHHHHHH
Q 043204          312 IVEGDKVLDE  321 (504)
Q Consensus       312 ~~~a~~~~~~  321 (504)
                      .++|..++++
T Consensus       346 ~~~A~~~~~~  355 (368)
T 1fch_A          346 SDAYGAADAR  355 (368)
T ss_dssp             GGGHHHHHTT
T ss_pred             hHhHHHhHHH
Confidence            8888887763

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=1.1e-18  Score=159.21  Aligned_cols=280  Identities=13%  Similarity=-0.019  Sum_probs=207.6

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +...+..+...+.+.|++++|+..|+++.+..|.   +..+|..+..++...|++++|.+.|+++.+.. +.+..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG---DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            4556788888999999999999999999998776   78889999999999999999999999998876 6667889999


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCc---------cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHH
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVN---------WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLL  157 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  157 (504)
                      ..+|...|++++|...|+++.+.....         ....+..+...+...|++++|...|+++....+..++..++..+
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            999999999999999999887654211         12223445778888999999999999988764433356788889


Q ss_pred             HHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh
Q 043204          158 MDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD  237 (504)
Q Consensus       158 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  237 (504)
                      ...|...|++++|.+.|++..+.. +.+..+|..+..++...|++++|...|+++    .... +.+..++..+..+|..
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a----l~~~-p~~~~~~~~l~~~~~~  293 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRA----LEIQ-PGFIRSRYNLGISCIN  293 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HhcC-CCchHHHHHHHHHHHH
Confidence            999999999999999999988764 336788889999999999999999999988    3332 2257788889999999


Q ss_pred             cCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 043204          238 QGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDK  317 (504)
Q Consensus       238 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  317 (504)
                      .|++++|...|+++.+...........                         .....+...|..+..++...|+.+.+..
T Consensus       294 ~g~~~~A~~~~~~al~~~~~~~~~~~~-------------------------~~~~~~~~~~~~l~~~~~~~g~~~~a~~  348 (365)
T 4eqf_A          294 LGAYREAVSNFLTALSLQRKSRNQQQV-------------------------PHPAISGNIWAALRIALSLMDQPELFQA  348 (365)
T ss_dssp             HTCCHHHHHHHHHHHHHHHCC-------------------------------------CHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcccCCCccc-------------------------chhhhHHHHHHHHHHHHHHcCcHHHHHH
Confidence            999999999999887753210000000                         0000135667777777777788877766


Q ss_pred             HHHH
Q 043204          318 VLDE  321 (504)
Q Consensus       318 ~~~~  321 (504)
                      +..+
T Consensus       349 ~~~~  352 (365)
T 4eqf_A          349 ANLG  352 (365)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            6543

>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=99.82  E-value=3.1e-16  Score=155.97  Aligned_cols=379  Identities=13%  Similarity=0.097  Sum_probs=282.6

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYA   91 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (504)
                      ...+++|...|.+.+|+++++++.-....+.-+...-+.++....+. +..+..+..++.....       ...+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d-------~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-------APDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc-------HHHHHHHHH
Confidence            45678899999999999999999954222333455666677777666 5677777766665221       333778888


Q ss_pred             hcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHH
Q 043204           92 RAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLAL  171 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  171 (504)
                      ..|.+++|..+|++..    .+ ....+.++   -..+++++|.++.++..       +..+|..+..++...|++++|.
T Consensus      1061 ~lglyEEAf~IYkKa~----~~-~~A~~VLi---e~i~nldrAiE~Aervn-------~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFD----VN-TSAVQVLI---EHIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             hCCCHHHHHHHHHHcC----CH-HHHHHHHH---HHHhhHHHHHHHHHhcC-------CHHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999999863    11 22222332   27789999999998763       3568899999999999999999


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 043204          172 HVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKI  251 (504)
Q Consensus       172 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  251 (504)
                      +.|.+.      -|...|..++.++.+.|++++|.+.|...    ++..  ++....+.++.+|++.++++....+.   
T Consensus      1126 dsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mA----rk~~--~e~~Idt~LafaYAKl~rleele~fI--- 1190 (1630)
T 1xi4_A         1126 DSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMA----RKKA--RESYVETELIFALAKTNRLAELEEFI--- 1190 (1630)
T ss_pred             HHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHH----Hhhc--ccccccHHHHHHHHhhcCHHHHHHHH---
Confidence            999764      37788999999999999999999999877    4433  23333345899999999888544442   


Q ss_pred             HHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcch
Q 043204          252 LRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSL  331 (504)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  331 (504)
                       +   .+... .+..++..|...|+++.|..+|..+         ..|..+...+.+.|+++.|.+.+++..      +.
T Consensus      1191 -~---~~n~a-d~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~ 1250 (1630)
T 1xi4_A         1191 -N---GPNNA-HIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------ST 1250 (1630)
T ss_pred             -h---CCCHH-HHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CH
Confidence             2   12333 3334788999999999999999885         489999999999999999999998772      67


Q ss_pred             hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHH
Q 043204          332 VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVD  411 (504)
Q Consensus       332 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  411 (504)
                      .+|..+..+|...|++..|......      +..+...+..++..|.+.|.+++|+.+++..... . +-....|+-|..
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L-e-raH~gmftELai 1322 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGL-E-RAHMGMFTELAI 1322 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-C-hhHhHHHHHHHH
Confidence            8999999999999999999876653      2345667778999999999999999999887643 1 223345656666


Q ss_pred             HHhh--cCcHHHHHHHHHHHHhcCcCC------CcchHHHHHHHHHccCCHHHHH
Q 043204          412 GLCR--DGRFLEASRVLEEMLIRSYWP------CVETYNVLIRGLCSIGKQYEAV  458 (504)
Q Consensus       412 ~~~~--~g~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~  458 (504)
                      +|++  -++..++.+.|..-.  +++|      +...|..++-.|.+.|+++.|.
T Consensus      1323 LyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1323 LYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            6655  345555555555322  2222      4677999999999999999998

>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=2.5e-18  Score=153.06  Aligned_cols=188  Identities=11%  Similarity=0.090  Sum_probs=66.2

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN   97 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (504)
                      +-+.|++++|.++++++.        +..+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|+++
T Consensus        13 l~~~~~ld~A~~fae~~~--------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~E   78 (449)
T 1b89_A           13 IEHIGNLDRAYEFAERCN--------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWE   78 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHccCHHHHHHHHHhCC--------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHH
Confidence            346788999999999982        3349999999999999999999999653      57779999999999999999


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHh
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEM  177 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  177 (504)
                      +|++.++..++.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|+.+...|...|.+++|..+|..+
T Consensus        79 eAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a  148 (449)
T 1b89_A           79 ELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV  148 (449)
T ss_dssp             --------------------------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT
T ss_pred             HHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence            999988877764  3446778999999999999999988774        256679999999999999999999999977


Q ss_pred             hhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHH
Q 043204          178 DFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQIL  248 (504)
Q Consensus       178 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  248 (504)
                               ..|..++.++.+.|++++|.+.+.++          .++.+|..++.+|...|+++.|....
T Consensus       149 ---------~n~~~LA~~L~~Lg~yq~AVea~~KA----------~~~~~Wk~v~~aCv~~~ef~lA~~~~  200 (449)
T 1b89_A          149 ---------SNFGRLASTLVHLGEYQAAVDGARKA----------NSTRTWKEVCFACVDGKEFRLAQMCG  200 (449)
T ss_dssp             ---------TCHHHHHHHHHTTTCHHHHHHHHHHH----------TCHHHHHHHHHHHHHTTCHHHHHHTT
T ss_pred             ---------hhHHHHHHHHHHhccHHHHHHHHHHc----------CCchhHHHHHHHHHHcCcHHHHHHHH
Confidence                     36999999999999999999999876          16889999999999999999995443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=7.3e-18  Score=153.73  Aligned_cols=277  Identities=10%  Similarity=-0.046  Sum_probs=182.4

Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          150 RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       150 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      +...+..+...+.+.|++++|.++|+++.+.. +.+..++..+...+...|++++|...|+++    .... +.+..++.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a----l~~~-p~~~~~~~  137 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRC----LELQ-PNNLKALM  137 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHH----HhcC-CCCHHHHH
Confidence            34557778888889999999999999888764 336788888899999999999999999888    3432 23577888


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+..+|...|++++|...++++.+..  |........+.                         .....+..+...+...
T Consensus       138 ~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~-------------------------~~~~~~~~l~~~~~~~  190 (365)
T 4eqf_A          138 ALAVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKK-------------------------GSPGLTRRMSKSPVDS  190 (365)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC--------------------------------------------CC
T ss_pred             HHHHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhc-------------------------cchHHHHHHHHHHhhh
Confidence            89999999999999999999988753  11111111100                         0122334445566666


Q ss_pred             CChhHHHHHHHHHHHCCCC-cchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHH
Q 043204          310 GRIVEGDKVLDEMRTKGFW-PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVM  388 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  388 (504)
                      |++++|...++++.+.... ++..++..+...|...|++++|...|++++...  +.+..+|..+..+|...|++++|..
T Consensus       191 g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~  268 (365)
T 4eqf_A          191 SVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVE  268 (365)
T ss_dssp             HHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777777665422 145666777777777777777777777755543  3355677777777777777777777


Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCc---C--------CCcchHHHHHHHHHccCCHHHH
Q 043204          389 YLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSY---W--------PCVETYNVLIRGLCSIGKQYEA  457 (504)
Q Consensus       389 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~--------~~~~~~~~l~~~~~~~g~~~~a  457 (504)
                      .|+++.+.  .+.+..++..+..+|.+.|++++|...|+++.+..-   .        .+...|..+..++...|+.+.+
T Consensus       269 ~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  346 (365)
T 4eqf_A          269 AYTRALEI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELF  346 (365)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHH
Confidence            77777654  122356677777777777777777777777765420   0        1256677777777777777777


Q ss_pred             HHHHHH
Q 043204          458 VMWLEE  463 (504)
Q Consensus       458 ~~~~~~  463 (504)
                      .++.++
T Consensus       347 ~~~~~~  352 (365)
T 4eqf_A          347 QAANLG  352 (365)
T ss_dssp             HHHHTT
T ss_pred             HHHHHh
Confidence            766654

>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=1.7e-17  Score=147.73  Aligned_cols=268  Identities=12%  Similarity=0.080  Sum_probs=127.8

Q ss_pred             CCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         5 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      .|.+.+|..|+.++.+.|++++|++.|.+.        +|..+|..++..+...|++++|+..++...+.  .+++.+.+
T Consensus        29 ~~~~~vWs~La~A~l~~g~~~eAIdsfika--------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~   98 (449)
T 1b89_A           29 CNEPAVWSQLAKAQLQKGMVKEAIDSYIKA--------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVET   98 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHcC--------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHH
Confidence            355679999999999999999999999653        27779999999999999999999988877774  46678899


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+          ..|..++.++.+.
T Consensus        99 ~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~L  161 (449)
T 1b89_A           99 ELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHL  161 (449)
T ss_dssp             ----------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHh
Confidence            99999999999999998874       256679999999999999999999999977          2689999999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  244 (504)
                      |++++|.+.++++      .++.+|..++.+|...|+++.|......         +..++.-...++..|.+.|.+++|
T Consensus       162 g~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~---------L~~~ad~l~~lv~~Yek~G~~eEa  226 (449)
T 1b89_A          162 GEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH---------IVVHADELEELINYYQDRGYFEEL  226 (449)
T ss_dssp             TCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT---------TTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH---------HHhCHhhHHHHHHHHHHCCCHHHH
Confidence            9999999999998      2789999999999999999999554432         223444456789999999999999


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc--CChhHHHHHHHHH
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE--GRIVEGDKVLDEM  322 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~~  322 (504)
                      ..+++..+...  +                                   .....|+.+...|++-  +++.+.++.|..-
T Consensus       227 i~lLe~aL~le--~-----------------------------------ah~~~ftel~il~~ky~p~k~~ehl~~~~~~  269 (449)
T 1b89_A          227 ITMLEAALGLE--R-----------------------------------AHMGMFTELAILYSKFKPQKMREHLELFWSR  269 (449)
T ss_dssp             HHHHHHHTTST--T-----------------------------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT
T ss_pred             HHHHHHHhCCc--H-----------------------------------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            99999987543  1                                   1334444444444443  4444444444311


Q ss_pred             HHCCCCc------chhhHHHHHHHHhcCCCHHHHHHH
Q 043204          323 RTKGFWP------SLVMYEAKLAALFKDGMVDEALEV  353 (504)
Q Consensus       323 ~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~  353 (504)
                        .+++|      +...|..++-.|...++++.|...
T Consensus       270 --ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          270 --VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             --SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             --hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence              12222      456788888888999999988764

>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=99.80  E-value=3.1e-17  Score=147.10  Aligned_cols=278  Identities=10%  Similarity=-0.038  Sum_probs=209.7

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +...+-.+...+...|++++|+.+|+++.+..|+   +..++..+..++...|++++|.+.++++.+.. +.+..++..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   95 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE---REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAAL   95 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHH
Confidence            4566677888999999999999999999999876   88889999999999999999999999999876 6677889999


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH--------------HH-HHHhcchHHHHHHHHHHhhcCCCCcchH
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL--------------LK-EMVKESKLEAAHILFLRSCYGWEVKSRI  151 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (504)
                      ...+...|++++|.+.|+.+.+..... ...+..+              .. .+...|++++|...++++....  +.+.
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~  172 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLSQPQY-EQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN--PNDA  172 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTSTTT-TTC--------------------CCTTSHHHHHHHHHHHHHHHHHS--TTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCcc-HHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC--CCCH
Confidence            999999999999999999988765332 2222222              22 3677788999999998887653  2256


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTL  231 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l  231 (504)
                      ..+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++    .... +.+..++..+
T Consensus       173 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a----~~~~-~~~~~~~~~l  246 (327)
T 3cv0_A          173 QLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRA----LDIN-PGYVRVMYNM  246 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHcC-CCCHHHHHHH
Confidence            677888888889999999999998887764 235677888888888999999999998887    3332 2357788888


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 043204          232 LFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGR  311 (504)
Q Consensus       232 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  311 (504)
                      ..+|...|++++|.+.++++.+............                         ....+...+..+...+...|+
T Consensus       247 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~-------------------------~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          247 AVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEA-------------------------SREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTSCC------------------------------CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCccccccccc-------------------------hhhcCHHHHHHHHHHHHhcCC
Confidence            8889999999999999988876532110000000                         000135567777777888888


Q ss_pred             hhHHHHHHHHH
Q 043204          312 IVEGDKVLDEM  322 (504)
Q Consensus       312 ~~~a~~~~~~~  322 (504)
                      .++|..++++.
T Consensus       302 ~~~A~~~~~~~  312 (327)
T 3cv0_A          302 PDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHTTCC
T ss_pred             HHHHHHHHHHH
Confidence            88888777643

>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=99.79  E-value=1.1e-16  Score=143.45  Aligned_cols=281  Identities=9%  Similarity=-0.031  Sum_probs=182.4

Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          150 RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       150 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      +...+..+...+...|++++|..+|+++.+... .+...+..+..++...|++++|...++++    .... +.+..++.
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a----~~~~-~~~~~~~~   93 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHA----RMLD-PKDIAVHA   93 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HhcC-cCCHHHHH
Confidence            344556677788888888888888888877542 36677888888888889999999988888    3332 23577888


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH--HH
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID--LY  307 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~  307 (504)
                      .+..++...|++++|.+.++++.+...  ........+...                      .|+......+...  +.
T Consensus        94 ~la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~  149 (327)
T 3cv0_A           94 ALAVSHTNEHNANAALASLRAWLLSQP--QYEQLGSVNLQA----------------------DVDIDDLNVQSEDFFFA  149 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTST--TTTTC------------------------------------------CCTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC--ccHHHHHHHhHH----------------------HHHHHHHHHHHHhHHHH
Confidence            888888899999999999988887532  222222111000                      0111111111122  44


Q ss_pred             hcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHH
Q 043204          308 NEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAV  387 (504)
Q Consensus       308 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  387 (504)
                      ..|++++|...++++.+.... +...+..+...|...|++++|...+++++...  +.+..++..+...+...|++++|.
T Consensus       150 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          150 APNEYRECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            456677777777777665432 56667777777777777777777777754443  334566777777777777777777


Q ss_pred             HHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCC-----------CcchHHHHHHHHHccCCHHH
Q 043204          388 MYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWP-----------CVETYNVLIRGLCSIGKQYE  456 (504)
Q Consensus       388 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~  456 (504)
                      ..++++.+.  .+.+...+..+..+|...|++++|.+.++++.+..-..           +...|..+..++.+.|++++
T Consensus       227 ~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          227 DAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            777777654  22345667777777777777777777777776642110           35567777777777888887


Q ss_pred             HHHHHHHHH
Q 043204          457 AVMWLEEMI  465 (504)
Q Consensus       457 a~~~~~~~~  465 (504)
                      |.+++++..
T Consensus       305 A~~~~~~~l  313 (327)
T 3cv0_A          305 VELTYAQNV  313 (327)
T ss_dssp             HHHHTTCCS
T ss_pred             HHHHHHHHH
Confidence            777776543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=1e-15  Score=144.79  Aligned_cols=393  Identities=11%  Similarity=-0.027  Sum_probs=239.6

Q ss_pred             cchhcHHHHHHHHhccCChhHHHHHHHHhhcC--------CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC-----
Q 043204           43 HNGPVYASMIGILSESNRITEMKEVIDQMKGD--------SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF-----  109 (504)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  109 (504)
                      .....|+.|..++...|++++|++.|++..+.        .-+....+|+.+..+|...|++++|...+++..+.     
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34667999999999999999999999886542        11234467899999999999999999999876532     


Q ss_pred             C--CCccHHHHHHHHHHHHhc--chHHHHHHHHHHhhcCCCCcchHHHHHHHHHH---HhhcCCHHHHHHHHHHhhhCCC
Q 043204          110 N--CVNWTQSFNTLLKEMVKE--SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV---LCQCRRSDLALHVFQEMDFQGC  182 (504)
Q Consensus       110 ~--~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~  182 (504)
                      +  ......++..+..++...  +++++|...|++.....+-.|  ..+..+..+   +...++.++|++.+++..+.. 
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~--~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNP--EFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCH--HHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCH--HHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence            1  112245666665555554  579999999999876533333  333444333   445678888999998887753 


Q ss_pred             CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCC
Q 043204          183 YPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKA  258 (504)
Q Consensus       183 ~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  258 (504)
                      +.+..++..+...+..    .+++++|.+.+++.    .... +.+..++..+...|...|++++|...+++..+..  |
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~a----l~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p  278 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEA----LEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--P  278 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHH----HHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH----HHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--C
Confidence            2245556555554443    46778899999887    3432 3367788889999999999999999999998863  3


Q ss_pred             CcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHH
Q 043204          259 PKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKL  338 (504)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  338 (504)
                      .+...+..+...+...         .......       ............+..+.|...+++..+.... +...+..+.
T Consensus       279 ~~~~~~~~lg~~y~~~---------~~~~~~~-------~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg  341 (472)
T 4g1t_A          279 NNAYLHCQIGCCYRAK---------VFQVMNL-------RENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILA  341 (472)
T ss_dssp             TCHHHHHHHHHHHHHH---------HHHHHHC-------------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHH
T ss_pred             ChHHHHHHHHHHHHHH---------HHHhhhH-------HHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHH
Confidence            4333332222111000         0000000       0000000111123467788888888876533 667888899


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhcCCCCccH--HHHHHHHH-HHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh
Q 043204          339 AALFKDGMVDEALEVIEEEMVKGTFVPTV--RVYNILLK-GLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR  415 (504)
Q Consensus       339 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  415 (504)
                      ..|...|++++|...|++++.... .+..  ..+..+.. .....|+.++|+..|.+..+.   .|+.....        
T Consensus       342 ~~~~~~~~~~~A~~~~~kaL~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i---~~~~~~~~--------  409 (472)
T 4g1t_A          342 SLHALADQYEEAEYYFQKEFSKEL-TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI---NQKSREKE--------  409 (472)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS---CCCCHHHH--------
T ss_pred             HHHHHhccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CcccHHHH--------
Confidence            999999999999999998665432 2221  12223322 245789999999999998754   55543222        


Q ss_pred             cCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHHH
Q 043204          416 DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQA-KLPDISVW  476 (504)
Q Consensus       416 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~  476 (504)
                       +....+.++++...+.+ +.+..+|..+..+|...|++++|++.|++.++.+ ..|+..+|
T Consensus       410 -~~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          410 -KMKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             -HHHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             -HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence             22344556666666653 4568899999999999999999999999999754 23444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=1.2e-16  Score=139.69  Aligned_cols=131  Identities=19%  Similarity=0.081  Sum_probs=57.2

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhH---HHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHH
Q 043204          295 SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMY---EAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYN  371 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  371 (504)
                      +...+..+...+.+.|++++|...|+++.+..  |+....   ...+..+...|++++|..+|++++...  +.+...++
T Consensus       129 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~  204 (291)
T 3mkr_A          129 SLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLN  204 (291)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHH
Confidence            33444444455555555555555555555442  221100   112222223345555555555433332  23444444


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHH-HHHHHHHHHh
Q 043204          372 ILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE-ASRVLEEMLI  431 (504)
Q Consensus       372 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~  431 (504)
                      .+..++.+.|++++|...+++..+.  .+-+..++..++..+...|+.++ +.++++++.+
T Consensus       205 ~la~~~~~~g~~~eA~~~l~~al~~--~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          205 GQAACHMAQGRWEAAEGVLQEALDK--DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            4545555555555555555554433  11233344444444444454433 3344444444

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.77  E-value=8.9e-16  Score=134.08  Aligned_cols=256  Identities=12%  Similarity=0.090  Sum_probs=177.6

Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCH
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS  167 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  167 (504)
                      +-....|++..|+..++........+.......+.++|...|+++.|+..++.     ..+|+..++..+...+...++.
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~-----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP-----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT-----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc-----cCChhHHHHHHHHHHHcCCCcH
Confidence            44455677777777777665544333233445567777778888777765543     1345677778888888888888


Q ss_pred             HHHHHHHHHhhhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          168 DLALHVFQEMDFQGCYPD-RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       168 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      ++|++.++++...+..|+ ...+..+...+...|++++|++.+++          ..+...+..++..+.+.|++++|.+
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~----------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ----------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT----------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC----------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            888888888877654454 45556666788888888888887652          3467788888888888888888888


Q ss_pred             HHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 043204          247 ILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG  326 (504)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  326 (504)
                      .|+++.+..  |+...                                 ......++..+...|++++|..+|+++.+..
T Consensus       152 ~l~~~~~~~--p~~~~---------------------------------~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~  196 (291)
T 3mkr_A          152 ELKKMQDQD--EDATL---------------------------------TQLATAWVSLAAGGEKLQDAYYIFQEMADKC  196 (291)
T ss_dssp             HHHHHHHHC--TTCHH---------------------------------HHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHhhC--cCcHH---------------------------------HHHHHHHHHHHhCchHHHHHHHHHHHHHHhC
Confidence            888887763  11100                                 0011112223334578888888888888763


Q ss_pred             CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH-HHHHHHHHHHh
Q 043204          327 FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV-AVMYLKKMSKQ  396 (504)
Q Consensus       327 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~  396 (504)
                       +.+...++.+..++.+.|++++|...|++++...  +-+..++..++..+...|+.++ +.++++++.+.
T Consensus       197 -p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          197 -SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence             3477788888888888888888888888866665  3456677778888888888865 56788887754

>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=99.77  E-value=4.5e-14  Score=140.86  Aligned_cols=383  Identities=13%  Similarity=0.125  Sum_probs=284.2

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL  121 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (504)
                      ++.--...+.+|...|.+.+|++++++..-.+-  ..+...-+.++.+.++. +..+..+..+......       ...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d-------~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-------APDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc-------HHHH
Confidence            334446677888899999999999999884421  13445666677777776 5666666666654222       2347


Q ss_pred             HHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043204          122 LKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR  201 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  201 (504)
                      ...+...|.+++|..+|++...      .....+.++   -..+++++|.++.++..      +..+|..+..++...|+
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~~------~~~A~~VLi---e~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFDV------NTSAVQVLI---EHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCC------HHHHHHHHH---HHHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCC
Confidence            7888899999999999998731      112223333   26789999999998763      57889999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHH
Q 043204          202 LNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAK  281 (504)
Q Consensus       202 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  281 (504)
                      +++|...|.+.          .|...|..++.++.+.|++++|.+++....+....   .....-++..+++.++++...
T Consensus      1121 ~kEAIdsYiKA----------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e---~~Idt~LafaYAKl~rleele 1187 (1630)
T 1xi4_A         1121 VKEAIDSYIKA----------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARE---SYVETELIFALAKTNRLAELE 1187 (1630)
T ss_pred             HHHHHHHHHhc----------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhccc---ccccHHHHHHHHhhcCHHHHH
Confidence            99999998643          36788889999999999999999999988775422   112223566777778887544


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC
Q 043204          282 SLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG  361 (504)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  361 (504)
                      .++    .   .++...+..+...|...|++++|..+|...         ..|..+..+|.+.|++++|.+.++++    
T Consensus      1188 ~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA---- 1247 (1630)
T 1xi4_A         1188 EFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA---- 1247 (1630)
T ss_pred             HHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh----
Confidence            442    2   246677778888999999999999999875         37899999999999999999999872    


Q ss_pred             CCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchH
Q 043204          362 TFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETY  441 (504)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  441 (504)
                         .+..+|..+-.+|...|++..|......+      ..++..+..++..|.+.|.+++|..+++...... +-....|
T Consensus      1248 ---~n~~aWkev~~acve~~Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmf 1317 (1630)
T 1xi4_A         1248 ---NSTRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMF 1317 (1630)
T ss_pred             ---CCHHHHHHHHHHHhhhhHHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHH
Confidence               46689999999999999999998866543      2355677799999999999999999998887654 3345566


Q ss_pred             HHHHHHHHcc--CCHHHHHHHHHHHHHcCCCC------CHHHHHHHHHHHhcCCCchhHHHH
Q 043204          442 NVLIRGLCSI--GKQYEAVMWLEEMISQAKLP------DISVWSSLVASVCCNTADLNVCRK  495 (504)
Q Consensus       442 ~~l~~~~~~~--g~~~~a~~~~~~~~~~~~~p------~~~~~~~ll~~~~~~~~~~~~a~~  495 (504)
                      .-+...|++.  ++..++.++|..-.  ++.|      +...|..++-.|++.+. ++.|..
T Consensus      1318 tELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e-~dnA~~ 1376 (1630)
T 1xi4_A         1318 TELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEE-YDNAII 1376 (1630)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhccc-HHHHHH
Confidence            6666666653  45555555555332  3333      45678888887777766 988874

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.76  E-value=5.7e-19  Score=169.90  Aligned_cols=155  Identities=15%  Similarity=0.088  Sum_probs=124.6

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC--CCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhH
Q 043204          112 VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG--WEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESY  189 (504)
Q Consensus       112 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  189 (504)
                      .....||+++|++|++.|++++|..+|+.|...  .+..||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            334568999999999999999999999887542  368899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCC-----cchh
Q 043204          190 HILMKGLCNDRR-LNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAP-----KSRR  263 (504)
Q Consensus       190 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~  263 (504)
                      |++|.++++.|+ .++|.++|++|    .+.|+.||..+|+.++..+.+.    .+++.++++ ..+..|+     ....
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM----~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t  274 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQM----SQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNT  274 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHH----HHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHH----HHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccc
Confidence            999999999998 47899999999    8999999999999998765543    444444444 2333332     2444


Q ss_pred             hhhhccccCCCC
Q 043204          264 HRIDLCPCNDGE  275 (504)
Q Consensus       264 ~~~~~~~~~~~~  275 (504)
                      ..++..++.+.+
T Consensus       275 ~~LL~dl~s~d~  286 (1134)
T 3spa_A          275 SKLLRDVYAKDG  286 (1134)
T ss_dssp             CTTTHHHHCCCS
T ss_pred             hHHHHHHHccCC
Confidence            455556665544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=4.6e-15  Score=140.28  Aligned_cols=367  Identities=12%  Similarity=-0.077  Sum_probs=206.5

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC------CC-CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC---
Q 043204          112 VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG------WE-VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQG---  181 (504)
Q Consensus       112 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  181 (504)
                      ......|+.|...+...|+.++|++.|++..+-      .. .+....+|+.+..+|...|++++|...+++..+..   
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            344567888888888888888888888876431      01 12235677888888888888888888887765421   


Q ss_pred             CCC-C---HhhHHHHHHHHHhcC--CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH---HHhcCchhHHHHHHHHHH
Q 043204          182 CYP-D---RESYHILMKGLCNDR--RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFA---LCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       182 ~~p-~---~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~  252 (504)
                      ..+ +   ..++..+..++...|  ++++|...|++.    ....+. +...+..+..+   +...++.++|++.+++.+
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~ka----l~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al  202 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKA----LEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAI  202 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHH----HHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHH
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHH----HHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHh
Confidence            111 1   234555555666665  478888888877    333222 34444444444   334566777888888877


Q ss_pred             HcCCCCCcchhhhhh----ccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 043204          253 RKGLKAPKSRRHRID----LCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFW  328 (504)
Q Consensus       253 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  328 (504)
                      +.+  |........+    .......++++.|.+.+++.....+. +...+..+...+...|++++|...+++..+..+.
T Consensus       203 ~l~--p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~  279 (472)
T 4g1t_A          203 RLN--PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN  279 (472)
T ss_dssp             HHC--SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             hcC--CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC
Confidence            753  3433333322    23455667777888888877766543 5566777777777778888888888887775433


Q ss_pred             cchhhHHHHHHHHhcC-------------------CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHH
Q 043204          329 PSLVMYEAKLAALFKD-------------------GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMY  389 (504)
Q Consensus       329 ~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  389 (504)
                       +..++..+..+|...                   +..+.|...++++....  +.+..++..+...|...|++++|.+.
T Consensus       280 -~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~  356 (472)
T 4g1t_A          280 -NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN--DNLFRVCSILASLHALADQYEEAEYY  356 (472)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC--TTTCCCHHHHHHHHHHTTCHHHHHHH
T ss_pred             -hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC--CchhhhhhhHHHHHHHhccHHHHHHH
Confidence             555666666655432                   12445566666544433  22334566666777777777777777


Q ss_pred             HHHHHHhcCCCCchh--hHHHHHH-HHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          390 LKKMSKQVGCVANGE--TYGILVD-GLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       390 ~~~~~~~~~~~p~~~--~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      |++..+. ...+...  .+..+.. .....|+.++|...|++..+..  |+......         ....+.+++++..+
T Consensus       357 ~~kaL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~~~~---------~~~~l~~~~~~~l~  424 (472)
T 4g1t_A          357 FQKEFSK-ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSREKEK---------MKDKLQKIAKMRLS  424 (472)
T ss_dssp             HHHHHHS-CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHHHHH---------HHHHHHHHHHHHHH
T ss_pred             HHHHHhc-CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHHH---------HHHHHHHHHHHHHH
Confidence            7777654 2222111  1222222 2335677777777777776642  44332221         12333444555554


Q ss_pred             cCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhcC
Q 043204          467 QAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSSC  503 (504)
Q Consensus       467 ~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~  503 (504)
                      .. +.+..+|..+...+...|+ +++|.+.+++.++.
T Consensus       425 ~~-p~~~~~~~~LG~~~~~~g~-~~~A~~~y~kALe~  459 (472)
T 4g1t_A          425 KN-GADSEALHVLAFLQELNEK-MQQADEDSERGLES  459 (472)
T ss_dssp             HC-C-CTTHHHHHHHHHHHHHH-CC------------
T ss_pred             hC-CCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHhc
Confidence            32 3345677777777655555 99999999998764

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.75  E-value=8.4e-19  Score=168.76  Aligned_cols=157  Identities=13%  Similarity=0.020  Sum_probs=124.9

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhc-CCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEK-YPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      .+||.||.+|++.|++++|.++|+.|.+. ..|..||+.+||+||++|++.|++++|.++|++|.+.|+.||..||+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            36999999999999999999999887632 11678999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCh-hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           88 RTYARAGQL-NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        88 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      .++++.|+. +.|.++|++|.+.|+.||..+|+.++.+..+.+-++.+.++...+...+...|.+.+...|.+.|.+.+
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            999999975 788999999999999999999999987666655444443333222222112233556677777787665

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.70  E-value=6.7e-16  Score=128.91  Aligned_cols=208  Identities=13%  Similarity=-0.034  Sum_probs=106.1

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +...+..+...+.+.|++++|+..|+++.+..|+   +...+..+..++.+.|++++|...|++..+.. |.+...+..+
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~---~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQ---DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3445566667777777777777777777777666   66777777777777777777777777777665 5555666666


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      ..++...+..            .   ..         .....|++++|+..|++.....+  .+...+..+..++...|+
T Consensus        80 g~~~~~~~~~------------~---~~---------~~~~~g~~~~A~~~~~~al~~~P--~~~~~~~~lg~~~~~~g~  133 (217)
T 2pl2_A           80 SEAYVALYRQ------------A---ED---------RERGKGYLEQALSVLKDAERVNP--RYAPLHLQRGLVYALLGE  133 (217)
T ss_dssp             HHHHHHHHHT------------C---SS---------HHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhh------------h---hh---------hcccccCHHHHHHHHHHHHHhCc--ccHHHHHHHHHHHHHcCC
Confidence            6666666000            0   00         00011444555554444443211  123344444455555555


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      +++|+..|++..+..  .+...+..+..++...|++++|...|++.    .+.. +.+...+..+..++...|++++|..
T Consensus       134 ~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~a----l~~~-P~~~~~~~~la~~~~~~g~~~~A~~  206 (217)
T 2pl2_A          134 RDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKA----LEQA-PKDLDLRVRYASALLLKGKAEEAAR  206 (217)
T ss_dssp             HHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHH----HHHS-TTCHHHHHHHHHHHTC---------
T ss_pred             hHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhC-CCChHHHHHHHHHHHHccCHHHHHH
Confidence            555555555554443  34444555555555555555555555554    2222 2244455555555555555555555


Q ss_pred             HHHHH
Q 043204          247 ILEKI  251 (504)
Q Consensus       247 ~~~~~  251 (504)
                      .+++.
T Consensus       207 ~~~~~  211 (217)
T 2pl2_A          207 AAALE  211 (217)
T ss_dssp             -----
T ss_pred             HHHHH
Confidence            55444

>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=99.70  E-value=4.5e-13  Score=129.01  Aligned_cols=445  Identities=9%  Similarity=0.004  Sum_probs=269.9

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC---hhHH
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ---LNEA   99 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a   99 (504)
                      ...+.+..|+..+..+|.   |..+|..++..+.+.++++.+..+|+++...- |.....|...+..-.+.++   ++.+
T Consensus        47 ~~~d~i~~lE~~l~~np~---d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v  122 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQPT---DIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVI  122 (679)
T ss_dssp             CCSCHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHH
T ss_pred             CCHHHHHHHHHHHHHCcC---CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHH
Confidence            355667778888888887   99999999999999999999999999999875 6777788888888888888   9999


Q ss_pred             HHHHHHhhhCC-CCccHHHHHHHHHHHHhcchH--------HHHHHHHHHhhcCCCC-cch-HHHHHHHHHHHh------
Q 043204          100 VSLFKNLSQFN-CVNWTQSFNTLLKEMVKESKL--------EAAHILFLRSCYGWEV-KSR-IQSLNLLMDVLC------  162 (504)
Q Consensus       100 ~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~--------~~a~~~~~~~~~~~~~-~~~-~~~~~~l~~~~~------  162 (504)
                      .++|+...... ..|+...|...+....+.++.        +...++|+.....-|. .++ ...|...+....      
T Consensus       123 ~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~  202 (679)
T 4e6h_A          123 EPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVN  202 (679)
T ss_dssp             HHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCS
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccC
Confidence            99999988765 246777787777766555443        4455788887765555 443 457777766543      


Q ss_pred             ---hcCCHHHHHHHHHHhhhCCCCCCHhhHHH---HHHHH----------HhcCCHHHHHHHHHHHHHHHhhCCCC----
Q 043204          163 ---QCRRSDLALHVFQEMDFQGCYPDRESYHI---LMKGL----------CNDRRLNEATHLLYSMFWRISQKGSG----  222 (504)
Q Consensus       163 ---~~~~~~~a~~~~~~~~~~~~~p~~~~~~~---l~~~~----------~~~~~~~~a~~~~~~~~~~~~~~~~~----  222 (504)
                         ..++++.+.++|++........-..+|..   .-...          -...+++.|...+.++...  ..++.    
T Consensus       203 ~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~--~~~l~r~~p  280 (679)
T 4e6h_A          203 KFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNI--TKGLKRNLP  280 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHH--TTTCCCCCC
T ss_pred             cHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHH--HHhHhhccc
Confidence               23457889999999886311111123321   11111          0112334444444443111  01111    


Q ss_pred             -----------c-----C---HHHHHHHHHHHHhcC-------chhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCC
Q 043204          223 -----------E-----D---IVIYRTLLFALCDQG-------KIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGED  276 (504)
Q Consensus       223 -----------~-----~---~~~~~~l~~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  276 (504)
                                 |     +   ...|...+..--..+       ..+.+..+|++.+..  .|.....+...+..+...|+
T Consensus       281 ~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~  358 (679)
T 4e6h_A          281 ITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH--VCFAPEIWFNMANYQGEKNT  358 (679)
T ss_dssp             SSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHHSC
T ss_pred             cccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhcCc
Confidence                       1     0   133444443322222       123345667776665  23444444444555556667


Q ss_pred             hHHHH-HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC---------Cc------------chhhH
Q 043204          277 IEGAK-SLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGF---------WP------------SLVMY  334 (504)
Q Consensus       277 ~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------~~------------~~~~~  334 (504)
                      .+.|. .++++.....+ .+...|...+...-+.|+++.|..+|+.+.....         .|            ...+|
T Consensus       359 ~~~a~r~il~rAi~~~P-~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vW  437 (679)
T 4e6h_A          359 DSTVITKYLKLGQQCIP-NSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVY  437 (679)
T ss_dssp             CTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHH
Confidence            77775 77777775432 2444555566666666778888888777765310         02            12356


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhc-CCCCccHHHHHHHHHHHHhc-CChHHHHHHHHHHHHhcCCCCchhhHHHHHHH
Q 043204          335 EAKLAALFKDGMVDEALEVIEEEMVK-GTFVPTVRVYNILLKGLCDA-GNSAVAVMYLKKMSKQVGCVANGETYGILVDG  412 (504)
Q Consensus       335 ~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  412 (504)
                      ...+....+.|..+.|..+|..+... ....+  ..|...+..-.+. ++.+.|.++|+...+.+  +.+...+...++.
T Consensus       438 i~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~--~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~f  513 (679)
T 4e6h_A          438 CVYMNTMKRIQGLAASRKIFGKCRRLKKLVTP--DIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDF  513 (679)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCT--HHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcCCCCh--HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHH
Confidence            66666666777778888888775544 21222  2333222222333 44778888888777652  2344455666776


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCcCC--CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 043204          413 LCRDGRFLEASRVLEEMLIRSYWP--CVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVAS  482 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  482 (504)
                      ....|+.+.|..+|++.......+  ....|..++..-.+.|+.+.+.++.+++.+.  .|+......+..-
T Consensus       514 e~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~r  583 (679)
T 4e6h_A          514 LIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNK  583 (679)
T ss_dssp             HHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHH
Confidence            677778888888888777653111  2345666666666778888888888887754  3555555555554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.69  E-value=9.3e-15  Score=136.29  Aligned_cols=380  Identities=13%  Similarity=0.014  Sum_probs=200.1

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCCh---hHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRI---TEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      ..+...+.+.|++++|+++|++..+.  +   +..++..|...+...|+.   ++|.++|++..+.    ++..+..+..
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~--g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~   77 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAEL--G---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGR   77 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--T---CCTGGGTCC--------------------------------CHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHH
Confidence            44677778888999999999888876  4   566666677777777777   8888888887753    4555666666


Q ss_pred             HHHhcC-----ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH---HHHHHHHhhcCCCCcchHHHHHHHHHH
Q 043204           89 TYARAG-----QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA---AHILFLRSCYGWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        89 ~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~~l~~~  160 (504)
                      .+...+     ++++|+..|+...+.+...   .+..|...|...+..+.   +...+.......    +...+..|...
T Consensus        78 ~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~  150 (452)
T 3e4b_A           78 LLAAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLL  150 (452)
T ss_dssp             HHHTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHH
T ss_pred             HHHhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHH
Confidence            454444     6778888888877766432   44556666665554333   222332222111    12234445555


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDR---RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD  237 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  237 (504)
                      |...+.++++.+....+.+.-...++..+..|...|...|   +.++|...|++.    .+.|.. +...+..+...|..
T Consensus       151 y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~a----a~~g~~-~a~~~~~Lg~~y~~  225 (452)
T 3e4b_A          151 YRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAG----VSRGTV-TAQRVDSVARVLGD  225 (452)
T ss_dssp             HHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHH----HHTTCS-CHHHHHHHHHHHTC
T ss_pred             HHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHH----HHCCCH-HHHHHHHHHHHHhC
Confidence            5555533333332222111111112235555555555566   566666666555    344322 33333444444433


Q ss_pred             c----CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH-H--HhcC
Q 043204          238 Q----GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID-L--YNEG  310 (504)
Q Consensus       238 ~----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~--~~~~  310 (504)
                      .    +++++|.++|++.. .                                       -+...+..+... +  ...+
T Consensus       226 g~~~~~d~~~A~~~~~~aa-~---------------------------------------g~~~a~~~Lg~~~~~~~~~~  265 (452)
T 3e4b_A          226 ATLGTPDEKTAQALLEKIA-P---------------------------------------GYPASWVSLAQLLYDFPELG  265 (452)
T ss_dssp             GGGSSCCHHHHHHHHHHHG-G---------------------------------------GSTHHHHHHHHHHHHSGGGC
T ss_pred             CCCCCCCHHHHHHHHHHHc-C---------------------------------------CCHHHHHHHHHHHHhCCCCC
Confidence            3    34555555555543 2                                       134445555444 2  3457


Q ss_pred             ChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCC-----CHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh----cC
Q 043204          311 RIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDG-----MVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD----AG  381 (504)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  381 (504)
                      ++++|...|++..+.|   +...+..|...|. .|     ++++|...|+++.  .   -+...+..|...|..    ..
T Consensus       266 d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa--~---g~~~A~~~Lg~~y~~G~g~~~  336 (452)
T 3e4b_A          266 DVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV--G---REVAADYYLGQIYRRGYLGKV  336 (452)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT--T---TCHHHHHHHHHHHHTTTTSSC
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh--C---CCHHHHHHHHHHHHCCCCCCc
Confidence            8888888888888776   5566666766666 44     8888888888633  2   345566666666655    34


Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHH
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEA  457 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  457 (504)
                      ++++|...|++..+. |   +......|..+|..    ..+.++|...|+...+.|. ++.......+......++..+|
T Consensus       337 d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~~a  411 (452)
T 3e4b_A          337 YPQKALDHLLTAARN-G---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEANDLATQLEAPLTPAQRAEG  411 (452)
T ss_dssp             CHHHHHHHHHHHHTT-T---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHHHHHHHHHHTTCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHhh-C---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHhCCHHHHHHH
Confidence            788888888887765 4   23445556666653    4578888888888887762 2222222222222334456667


Q ss_pred             HHHHHHHHH
Q 043204          458 VMWLEEMIS  466 (504)
Q Consensus       458 ~~~~~~~~~  466 (504)
                      .++.++..+
T Consensus       412 ~~~~~~~~~  420 (452)
T 3e4b_A          412 QRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            776666553

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.69  E-value=1.9e-14  Score=125.15  Aligned_cols=247  Identities=10%  Similarity=-0.009  Sum_probs=194.9

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc--HHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK--DSVFAT   85 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~   85 (504)
                      ...+......+...|++++|+..|+++.+..|.   +...+..+..++...|++++|.+.+++..+....++  ...|..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   79 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN---SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEY   79 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC---CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC---cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHH
Confidence            345566778899999999999999999999876   777899999999999999999999999998431122  234889


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      +...+...|++++|++.|+...+... .+..++..+...+...|++++|...|++.....  +.+...|..+...+...+
T Consensus        80 lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~  156 (272)
T 3u4t_A           80 YGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT--TTDPKVFYELGQAYYYNK  156 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS--CCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC--CCcHHHHHHHHHHHHHHH
Confidence            99999999999999999999988653 346789999999999999999999999998653  334556677773444456


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHHHhhCCCCc----CHHHHHHHHHHHHhc
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR---LNEATHLLYSMFWRISQKGSGE----DIVIYRTLLFALCDQ  238 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~  238 (504)
                      ++++|.+.|++..+.. +.+...+..+..++...|+   +++|...++++.......+ .+    -..+|..+...|...
T Consensus       157 ~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  234 (272)
T 3u4t_A          157 EYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGG-AKYKDELIEANEYIAYYYTIN  234 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGG-GGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHHHHHc
Confidence            9999999999998864 2246777788888888888   8889999998854322211 11    135788899999999


Q ss_pred             CchhHHHHHHHHHHHcCCCCCcchhh
Q 043204          239 GKIQDAMQILEKILRKGLKAPKSRRH  264 (504)
Q Consensus       239 g~~~~a~~~~~~~~~~~~~~~~~~~~  264 (504)
                      |++++|.+.++++.+..  |++....
T Consensus       235 ~~~~~A~~~~~~al~~~--p~~~~a~  258 (272)
T 3u4t_A          235 RDKVKADAAWKNILALD--PTNKKAI  258 (272)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             CCHHHHHHHHHHHHhcC--ccHHHHH
Confidence            99999999999999874  4443333

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=7.3e-15  Score=122.59  Aligned_cols=209  Identities=11%  Similarity=-0.052  Sum_probs=131.4

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..+...+.+.|++++|...|++..+.. |.+...+..+..++.+.|++++|+..|++..+.++ .+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            44455555555555556666666555555554 44455555555555555555555555555554431 12333333333


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLN  203 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  203 (504)
                      .+...+..            .    +.         .+...|++++|+..|++..+... -+...+..+..++...|+++
T Consensus        82 ~~~~~~~~------------~----~~---------~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~  135 (217)
T 2pl2_A           82 AYVALYRQ------------A----ED---------RERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERD  135 (217)
T ss_dssp             HHHHHHHT------------C----SS---------HHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhh------------h----hh---------hcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChH
Confidence            33322100            0    00         01123999999999999988642 25778888999999999999


Q ss_pred             HHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSL  283 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  283 (504)
                      +|...|++.    .+..  .+...+..+..+|...|++++|...|++..+.  .|+.......+..++...|++++|...
T Consensus       136 ~A~~~~~~a----l~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~  207 (217)
T 2pl2_A          136 KAEASLKQA----LALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARA  207 (217)
T ss_dssp             HHHHHHHHH----HHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC----------
T ss_pred             HHHHHHHHH----Hhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHH
Confidence            999999999    5554  57889999999999999999999999999986  567777778888999999999999999


Q ss_pred             HHHHH
Q 043204          284 INEAL  288 (504)
Q Consensus       284 ~~~~~  288 (504)
                      +++..
T Consensus       208 ~~~~~  212 (217)
T 2pl2_A          208 AALEH  212 (217)
T ss_dssp             -----
T ss_pred             HHHHh
Confidence            88765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=2e-14  Score=123.91  Aligned_cols=224  Identities=13%  Similarity=0.045  Sum_probs=188.0

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC--cc----HHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCE--CK----DSVF   83 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   83 (504)
                      .+..+...+...|++++|+..|+++.+..    .+..+|..+..++...|++++|.+.+++..+....  ++    ..++
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~----~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH----KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS----CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh----ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            46678889999999999999999999984    48889999999999999999999999998875311  11    5778


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      ..+...+...|++++|...|+...+....         ...+...|++++|...+++.....  +.+...+..+...+..
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~---------~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRT---------ADILTKLRNAEKELKKAEAEAYVN--PEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCC---------HHHHHHHHHHHHHHHHHHHHHHCC--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCch---------hHHHHHHhHHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHH
Confidence            99999999999999999999998876533         234667799999999999987652  3356678889999999


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH
Q 043204          164 CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD  243 (504)
Q Consensus       164 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  243 (504)
                      .|++++|.+.|++..+.. +.+..++..+...+...|++++|...+++.    .... +.+...+..+..++...|++++
T Consensus       152 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a----l~~~-~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKA----IEKD-PNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHH----HHhC-HHHHHHHHHHHHHHHHHhhHHH
Confidence            999999999999998764 336788999999999999999999999988    4433 3357889999999999999999


Q ss_pred             HHHHHHHHHHc
Q 043204          244 AMQILEKILRK  254 (504)
Q Consensus       244 a~~~~~~~~~~  254 (504)
                      |.+.+++..+.
T Consensus       226 A~~~~~~a~~~  236 (258)
T 3uq3_A          226 ALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998775

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.67  E-value=2.3e-14  Score=133.62  Aligned_cols=378  Identities=10%  Similarity=0.008  Sum_probs=238.7

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCCh---hHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQL---NEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .+...+.+.|++++|.++|++..+.|   +...+..+...|...|+.   ++|+..|+...+.    +...+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            45677788899999999999988766   334455566666667777   8999999888755    3444556666455


Q ss_pred             hcc-----hHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH---HHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043204          127 KES-----KLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD---LALHVFQEMDFQGCYPDRESYHILMKGLCN  198 (504)
Q Consensus       127 ~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  198 (504)
                      ..+     +.++|...|++......  +  ..+..|...|...+..+   ++.+.+......|   +......+...|..
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~--~--~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~  153 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGE--G--NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRT  153 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTC--S--SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCC--H--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHc
Confidence            544     78899999998876432  2  25566777777665443   3455555555443   34566677777777


Q ss_pred             cCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC---chhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCC
Q 043204          199 DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQG---KIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGE  275 (504)
Q Consensus       199 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  275 (504)
                      .+.++++......+......  .  +...+..|...|...|   +.++|++.|++..+.+..                  
T Consensus       154 ~~~~~~~~~~a~~~~~~a~~--~--~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~------------------  211 (452)
T 3e4b_A          154 QGTYDQHLDDVERICKAALN--T--TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV------------------  211 (452)
T ss_dssp             HTCGGGGHHHHHHHHHHHTT--T--CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS------------------
T ss_pred             CCCcccCHHHHHHHHHHHHc--C--CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH------------------
Confidence            77665555544333221122  2  2337778888888888   888888888888876532                  


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc----CChhHHHHHHHHHHHCCCCcchhhHHHHHHH-H--hcCCCHH
Q 043204          276 DIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE----GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAA-L--FKDGMVD  348 (504)
Q Consensus       276 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~  348 (504)
                                         +...+..+...|...    ++.++|...|++.. .|   +...+..+... +  ...++++
T Consensus       212 -------------------~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~  268 (452)
T 3e4b_A          212 -------------------TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVE  268 (452)
T ss_dssp             -------------------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHH
T ss_pred             -------------------HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHH
Confidence                               444434455555443    68999999999988 43   56667777766 4  5689999


Q ss_pred             HHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcH
Q 043204          349 EALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG-----NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRF  419 (504)
Q Consensus       349 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~  419 (504)
                      +|...|+++. ..|   +...+..+...|. .|     ++++|.+.|++.. .    -+...+..|...|..    ..+.
T Consensus       269 ~A~~~~~~Aa-~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~----g~~~A~~~Lg~~y~~G~g~~~d~  338 (452)
T 3e4b_A          269 QMMKYLDNGR-AAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G----REVAADYYLGQIYRRGYLGKVYP  338 (452)
T ss_dssp             HHHHHHHHHH-HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T----TCHHHHHHHHHHHHTTTTSSCCH
T ss_pred             HHHHHHHHHH-HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C----CCHHHHHHHHHHHHCCCCCCcCH
Confidence            9999999955 433   5667777777776 55     9999999999876 3    356677777777776    4499


Q ss_pred             HHHHHHHHHHHhcCcCCCcchHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHH
Q 043204          420 LEASRVLEEMLIRSYWPCVETYNVLIRGLCS----IGKQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRK  495 (504)
Q Consensus       420 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~  495 (504)
                      ++|.+.|++..+.|   +......|...|..    ..+.++|..++++..+.|. ++.......+.. .....+.++|..
T Consensus       339 ~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a~~~l~~l~~-~~~~~~~~~a~~  413 (452)
T 3e4b_A          339 QKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEANDLATQLEA-PLTPAQRAEGQR  413 (452)
T ss_dssp             HHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHHHHHHHHHHT-TCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHH-hCCHHHHHHHHH
Confidence            99999999999876   45566677777764    5689999999999998774 333333333322 122234667777


Q ss_pred             HHHHhh
Q 043204          496 TLEQLS  501 (504)
Q Consensus       496 ~~~~~~  501 (504)
                      +.++-.
T Consensus       414 ~~~~~~  419 (452)
T 3e4b_A          414 LVQQEL  419 (452)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            766543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=2.8e-14  Score=122.93  Aligned_cols=228  Identities=11%  Similarity=-0.025  Sum_probs=158.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC----HH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED----IV  226 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~  226 (504)
                      ...+..+...+...|++++|...|++..+..  .+...+..+..++...|++++|...++++.......  .++    ..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~--~~~~~~~~~   80 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREM--RADYKVISK   80 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT--TCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc--ccchHHHHH
Confidence            4456777777888888888888888877765  577778888888888888888888888774332221  112    46


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 043204          227 IYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDL  306 (504)
Q Consensus       227 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  306 (504)
                      ++..+..++...|++++|...|+++.+...                                      +.       ..+
T Consensus        81 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--------------------------------------~~-------~~~  115 (258)
T 3uq3_A           81 SFARIGNAYHKLGDLKKTIEYYQKSLTEHR--------------------------------------TA-------DIL  115 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC--------------------------------------CH-------HHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCc--------------------------------------hh-------HHH
Confidence            777788888888888888888888877521                                      11       234


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHH
Q 043204          307 YNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVA  386 (504)
Q Consensus       307 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  386 (504)
                      ...|++++|...++.+..... .+...+..+...+...|++++|...+++++...  +.+..++..+..+|...|++++|
T Consensus       116 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A  192 (258)
T 3uq3_A          116 TKLRNAEKELKKAEAEAYVNP-EKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEA  192 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHH
Confidence            444667777777777766532 245566677777777777777777777755543  33556677777777777888888


Q ss_pred             HHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 043204          387 VMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       387 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  432 (504)
                      ...+++..+.  .+.+...+..+..+|.+.|++++|.+.+++..+.
T Consensus       193 ~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          193 IADCNKAIEK--DPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            8777777764  2334566777777777788888888777777664

>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=99.64  E-value=1.2e-13  Score=118.60  Aligned_cols=203  Identities=11%  Similarity=-0.026  Sum_probs=157.3

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|.+.|+++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            5567777788888888888888888887765 55677788888888888888888888888776653 346677788888


Q ss_pred             HHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043204          125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNE  204 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  204 (504)
                      +...|++++|...++++......+.+...+..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888887621223356677788888888888999988888887754 2356778888888888899999


Q ss_pred             HHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 043204          205 ATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKG  255 (504)
Q Consensus       205 a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  255 (504)
                      |...++++    .... +.+...+..+...+...|+.++|.+.++++.+..
T Consensus       194 A~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLF----AQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHH----HTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHH----HHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            98888887    4432 3466778888888888899999999998888763

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.64  E-value=8.8e-15  Score=124.91  Aligned_cols=198  Identities=13%  Similarity=0.123  Sum_probs=87.7

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...|+...+... .+..++..+...+.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHHHH
Confidence            34444444444444444444444444433 33334444444444444444444444444443321 12334444444444


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  206 (504)
                      ..|++++|...++++....  +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.
T Consensus       103 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            4455555555444444321  1123344455555555555555555555555432 124445555555556666666666


Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          207 HLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ..++++    .... +.+..++..+..+|...|++++|.+.++++.+.
T Consensus       180 ~~~~~~----~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          180 SQFAAV----TEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHH----HHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHH----HHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666555    2221 123455555666666666666666666666554

>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=99.64  E-value=3e-13  Score=117.57  Aligned_cols=222  Identities=11%  Similarity=0.012  Sum_probs=183.3

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc----cCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSE----SNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      .++..+...+...|++++|+..|++..+.  +   +..++..+...+..    .+++++|.+.|++..+.+   +...+.
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~--~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDL--K---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            44566778888899999999999999884  5   66788888888888    999999999999988875   677788


Q ss_pred             HHHHHHHh----cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHHHHHH
Q 043204           85 TAIRTYAR----AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQSLNL  156 (504)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  156 (504)
                      .+...|..    .+++++|++.|+...+.+   +..++..+...|..    .+++++|...|++.....    +...+..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~  151 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN----DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT----CHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC----cHHHHHH
Confidence            88888988    999999999999988875   46778888888888    899999999999887653    3456677


Q ss_pred             HHHHHhh----cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          157 LMDVLCQ----CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       157 l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      +...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++.    .+.+   +...+
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a----~~~~---~~~a~  221 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKA----CELE---NGGGC  221 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHH----HHTT---CHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHH----HhCC---CHHHH
Confidence            7778887    899999999999988764   56777888888888    89999999999888    4543   26677


Q ss_pred             HHHHHHHHh----cCchhHHHHHHHHHHHcC
Q 043204          229 RTLLFALCD----QGKIQDAMQILEKILRKG  255 (504)
Q Consensus       229 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~  255 (504)
                      ..+...|..    .+++++|.+.|++..+.+
T Consensus       222 ~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          222 FNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            788888888    889999999999988875

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.64  E-value=1.3e-13  Score=116.09  Aligned_cols=204  Identities=7%  Similarity=-0.081  Sum_probs=125.5

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..+...+...|++++|.+.|+.+.+.. +.+...+..+...+...|++++|.+.|+...+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            34455555566666666666666666655544 3445555666666666666666666666655543 223445556666


Q ss_pred             HHHhc-chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043204          124 EMVKE-SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       124 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      .+... |++++|...++++...+..+.+...+..+..++...|++++|.+.|+++.+.. +.+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            66666 66666666666665521222335566667777777777777777777776653 22466677777777777777


Q ss_pred             HHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          203 NEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ++|...++++    .......+...+..+...+...|+.+.+..+++.+.+.
T Consensus       164 ~~A~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKY----QSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHH----HHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH----HHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            7777777776    33222135556666667777777777777777777654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.64  E-value=2.1e-13  Score=118.53  Aligned_cols=95  Identities=13%  Similarity=0.057  Sum_probs=49.5

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc--CHHHHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE--DIVIYRTLL  232 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~~~l~  232 (504)
                      ......+...|++++|...|++..+... .+...+..+..++...|++++|...++++    ......+  ....|..+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETY----FSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHH----HTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHH----HhccCchhHHHHHHHHHH
Confidence            3344555556666666666666555421 13335555555666666666666666555    2211111  122355555


Q ss_pred             HHHHhcCchhHHHHHHHHHHHc
Q 043204          233 FALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       233 ~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .++...|++++|.+.|++..+.
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~  103 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDR  103 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhc
Confidence            5556666666666666555553

>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=99.63  E-value=2.2e-13  Score=116.89  Aligned_cols=195  Identities=13%  Similarity=-0.006  Sum_probs=117.5

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+...|++++|+..|+++.+..|+   +..++..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEIDPS---SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCC---hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344555566666666666666666666554   55566666666666666666666666666554 34555566666666


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCc-cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVN-WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      ...|++++|.+.|+.+.+.+..| +...+..+...+...|++++|...|++.....  +.+...+..+...+...|++++
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHH
Confidence            66666666666666665522222 34455566666666666666666666665432  1234455666666666666666


Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          170 ALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       170 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      |...++++.+.. +.+...+..+...+...|++++|.+.++++
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666666665543 234455556666666666666666666665

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=6.7e-15  Score=128.26  Aligned_cols=227  Identities=8%  Similarity=-0.057  Sum_probs=178.5

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCC-cchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC
Q 043204           17 IIKKQKSPLTALKIFKEAKEKYPNYR-HNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ   95 (504)
Q Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~p~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (504)
                      .+...|++++|+..|+++.+..|... .+..++..+...+...|++++|...|+++.+.. +.+..++..+...+...|+
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTC
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccC
Confidence            34557899999999999998743211 146778899999999999999999999999876 6678889999999999999


Q ss_pred             hhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHH
Q 043204           96 LNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQ  175 (504)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  175 (504)
                      +++|...|+...+... .+..++..+...+...|++++|...|+++....   |+.......+..+...|++++|...++
T Consensus        93 ~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           93 FDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD---PNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999999999988653 346788999999999999999999999987643   333333444555577799999999998


Q ss_pred             HhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC---cCHHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 043204          176 EMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG---EDIVIYRTLLFALCDQGKIQDAMQILEKIL  252 (504)
Q Consensus       176 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  252 (504)
                      +..... +++...+ .++..+...++.++|...++..    ......   .+..++..+..+|...|++++|...|++..
T Consensus       169 ~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  242 (275)
T 1xnf_A          169 QHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKAD----ATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAV  242 (275)
T ss_dssp             HHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHH----CCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHH----hcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            877653 2343444 4677778888889999998877    332211   125778889999999999999999999988


Q ss_pred             Hc
Q 043204          253 RK  254 (504)
Q Consensus       253 ~~  254 (504)
                      +.
T Consensus       243 ~~  244 (275)
T 1xnf_A          243 AN  244 (275)
T ss_dssp             TT
T ss_pred             hC
Confidence            75

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=2.5e-13  Score=114.21  Aligned_cols=199  Identities=10%  Similarity=-0.095  Sum_probs=171.5

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ...+..+...+...|++++|+..|+++.+..|.   +...+..+...+...|++++|.+.++++.+.. +.+..++..+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPK---NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc---chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            345677888999999999999999999998776   78899999999999999999999999999876 66778899999


Q ss_pred             HHHHhc-CChhHHHHHHHHhhhCCCCc-cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           88 RTYARA-GQLNEAVSLFKNLSQFNCVN-WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        88 ~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      ..+... |++++|...|+.+.+.+..| +...+..+...+...|++++|...|+++....  +.+...+..+...+...|
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcC
Confidence            999999 99999999999998832223 35778899999999999999999999987653  234677888999999999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ++++|.+.+++..+.....+...+..+...+...|+.+.+..+++.+
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            99999999999987643246777888888889999999999999887

>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=99.62  E-value=1.5e-13  Score=124.09  Aligned_cols=231  Identities=11%  Similarity=0.043  Sum_probs=189.8

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCC-hhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR-ITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      .|..+..++...|++++|+..|+++++..|+   +..+|+.+..++...|+ +++|+..|+++.+.. +.+..+|..+..
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~---~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNAA---NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCcc---CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4667788888999999999999999999887   88999999999999997 999999999999987 677888999999


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh-cCCH
Q 043204           89 TYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ-CRRS  167 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~  167 (504)
                      ++...|++++|+..|+.+.+.+. .+..+|..+..++.+.|++++|+..|+++....  +.+...|+.+..++.. .|..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCcc
Confidence            99999999999999999998773 457888999999999999999999999998653  2356788888888888 5665


Q ss_pred             HHH-----HHHHHHhhhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-
Q 043204          168 DLA-----LHVFQEMDFQGCYPDRESYHILMKGLCNDR--RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQG-  239 (504)
Q Consensus       168 ~~a-----~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  239 (504)
                      ++|     ++.|++...... -+...|+.+...+...|  ++++|.+.+.++      .....+...+..+..+|.+.| 
T Consensus       252 ~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~------~~~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL------QPSHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH------TTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh------ccCCCCHHHHHHHHHHHHHHhc
Confidence            777     588888877542 25678888888888877  688888877654      122345778888888888874 


Q ss_pred             --------chhHHHHHHHHH-HHc
Q 043204          240 --------KIQDAMQILEKI-LRK  254 (504)
Q Consensus       240 --------~~~~a~~~~~~~-~~~  254 (504)
                              ..++|.++++++ .+.
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKEK  348 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccchHHHHHHHHHHHHHHHHHh
Confidence                    258888888887 553

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.61  E-value=5.7e-14  Score=130.16  Aligned_cols=279  Identities=10%  Similarity=-0.044  Sum_probs=198.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcch----hcHHHHHHHHhccCChhHHHHHHHHhhcC----C-CCccHHHH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNG----PVYASMIGILSESNRITEMKEVIDQMKGD----S-CECKDSVF   83 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~   83 (504)
                      .+...+...|++++|+..|+++.+..|+   +.    .+|..+...+...|++++|.+.+++..+.    + .+....++
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~---~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTE---DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS---CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhccc---ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            4556778889999999999999988665   33    46788888899999999999998887653    1 12334568


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCC-----CCccHHHHHHHHHHHHhcch-----------------HHHHHHHHHHh
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFN-----CVNWTQSFNTLLKEMVKESK-----------------LEAAHILFLRS  141 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~  141 (504)
                      ..+...|...|++++|...|++..+..     ......++..+...|...|+                 +++|...+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            888889999999999999998766431     12334577888888999999                 88888888776


Q ss_pred             hcC----CCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCC-CC----HhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          142 CYG----WEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCY-PD----RESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       142 ~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ...    ........++..+...|...|++++|.+.+++..+.... ++    ..++..+...+...|++++|...+++.
T Consensus       210 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (411)
T 4a1s_A          210 LKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRT  289 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            431    111223457778888899999999999999887653110 11    226777888888999999999999888


Q ss_pred             HHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC
Q 043204          213 FWRISQKGSGE-DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG  291 (504)
Q Consensus       213 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  291 (504)
                      .......+..+ ...++..+..+|...|++++|...+++..........                               
T Consensus       290 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-------------------------------  338 (411)
T 4a1s_A          290 LALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD-------------------------------  338 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-------------------------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC-------------------------------
Confidence            65444332221 2456778888888999999999998887653110000                               


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 043204          292 GIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTK  325 (504)
Q Consensus       292 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  325 (504)
                      .......+..+...+...|++++|...+++..+.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            0012345666777777888888888888877764

>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=1.8e-12  Score=112.55  Aligned_cols=191  Identities=12%  Similarity=0.036  Sum_probs=137.8

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh----cCChhHHHHHHHHhhhCCCCccHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR----AGQLNEAVSLFKNLSQFNCVNWTQSFN  119 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (504)
                      +..++..+...+...|++++|.+.|++..+.   .+...+..+...|..    .+++++|...|++..+.+   +..++.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6667777788888888888888888888773   345667777778887    888888888888877765   456677


Q ss_pred             HHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh----cCCHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043204          120 TLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ----CRRSDLALHVFQEMDFQGCYPDRESYHI  191 (504)
Q Consensus       120 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~  191 (504)
                      .+...|..    .+++++|...|++.....    +...+..+...|..    .+++++|...|++..+.+   +...+..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK----YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC----CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            77777777    788888888887776542    44566777777777    778888888887777754   4556666


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHHc
Q 043204          192 LMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD----QGKIQDAMQILEKILRK  254 (504)
Q Consensus       192 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  254 (504)
                      +...+..    .+++++|...|++.    .+.+   +...+..+...|..    .+++++|...|++..+.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a----~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~  215 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKA----CDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACEL  215 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHH----HHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHH----HHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhC
Confidence            6666666    77777777777776    3432   34566666777777    67777777777766654

>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=99.61  E-value=1.9e-11  Score=117.81  Aligned_cols=426  Identities=9%  Similarity=0.003  Sum_probs=288.4

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCC---hhHHHHHHHHhhcCC-CCccHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR---ITEMKEVIDQMKGDS-CECKDSV   82 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~   82 (504)
                      |...|..++..+.+.+.++.+..+|++++...|.   ....|...+..-.+.++   ++.+.++|++..... .+|+...
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~---~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPL---MANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            4566888999999999999999999999999887   88889999999889998   999999999999875 1378888


Q ss_pred             HHHHHHHHHhcCCh--------hHHHHHHHHhhh-CCC-Cc-cHHHHHHHHHHHH---------hcchHHHHHHHHHHhh
Q 043204           83 FATAIRTYARAGQL--------NEAVSLFKNLSQ-FNC-VN-WTQSFNTLLKEMV---------KESKLEAAHILFLRSC  142 (504)
Q Consensus        83 ~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~  142 (504)
                      |...+....+.++.        +.+.++|+.... .|. .+ +...|...+....         ..++++.+..+|++..
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            88888777666554        334578877553 344 33 3457777776543         3456888999999998


Q ss_pred             cCCCCcchHHHHHH---HHHHHh----------hcCCHHHHHHHHHHhhh--CCCC---CC-------------------
Q 043204          143 YGWEVKSRIQSLNL---LMDVLC----------QCRRSDLALHVFQEMDF--QGCY---PD-------------------  185 (504)
Q Consensus       143 ~~~~~~~~~~~~~~---l~~~~~----------~~~~~~~a~~~~~~~~~--~~~~---p~-------------------  185 (504)
                      .-+ ...-..+|..   +...+.          ...+++.|...+.++..  .++.   |.                   
T Consensus       222 ~iP-~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~  300 (679)
T 4e6h_A          222 CQP-MDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQ  300 (679)
T ss_dssp             TSC-CSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHH
T ss_pred             hCc-cHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHH
Confidence            532 2112233322   211110          11233445555554322  1111   11                   


Q ss_pred             -HhhHHHHHHHHHhcC-------CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHH-HHHHHHHHcCC
Q 043204          186 -RESYHILMKGLCNDR-------RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAM-QILEKILRKGL  256 (504)
Q Consensus       186 -~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~~~  256 (504)
                       ...|...+..--..+       ..+.+..+|++.+    .. ..-+...|...+..+...|+.++|. ++|+.....  
T Consensus       301 ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL----~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~--  373 (679)
T 4e6h_A          301 QLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAA----QH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC--  373 (679)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHH----HH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHH----HH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh--
Confidence             122333333211211       1234566777773    33 2336778888888888889999997 999999875  


Q ss_pred             CCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC---------CCCC------------hhhHHHHHHHHHhcCChhHH
Q 043204          257 KAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG---------GIPS------------LASYSAMAIDLYNEGRIVEG  315 (504)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~------------~~~~~~ll~~~~~~~~~~~a  315 (504)
                      .|.+.......+......|+++.|..+|+.++...         ..|+            ...|...+....+.|+.+.|
T Consensus       374 ~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~A  453 (679)
T 4e6h_A          374 IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAAS  453 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHH
Confidence            35555555556667778899999999999988641         0132            23577777777777999999


Q ss_pred             HHHHHHHHHCCCCcchhhHHHHHHHHhcC-CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          316 DKVLDEMRTKGFWPSLVMYEAKLAALFKD-GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                      ..+|.+..+.-.......|...+..-.+. ++.+.|..+|+..+...  +.+...+...+......|+.+.|..+|++..
T Consensus       454 R~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal  531 (679)
T 4e6h_A          454 RKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSI  531 (679)
T ss_dssp             HHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999998861111233443333333344 55999999999978774  3455667788888888999999999999998


Q ss_pred             HhcCCCC--chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHH
Q 043204          395 KQVGCVA--NGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGL  448 (504)
Q Consensus       395 ~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  448 (504)
                      .. ...+  ....|...+..-.+.|+.+.+.++.+++.+.-  |+......+++-|
T Consensus       532 ~~-~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~--P~~~~~~~f~~ry  584 (679)
T 4e6h_A          532 DK-ISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF--PEVNKLEEFTNKY  584 (679)
T ss_dssp             TT-SSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS--TTCCHHHHHHHHT
T ss_pred             Hh-cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHh
Confidence            65 2111  34678888888889999999999999999873  6666666665554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=1.8e-13  Score=119.21  Aligned_cols=245  Identities=12%  Similarity=-0.077  Sum_probs=135.3

Q ss_pred             cchHHHHHHHHHHhhcCCCC--cchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEV--KSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEA  205 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  205 (504)
                      .|++++|+..|+++......  +.+..++..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            46666777777666654211  1245566677777777777777777777776653 22566677777777777777777


Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHH
Q 043204          206 THLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLIN  285 (504)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  285 (504)
                      ...|+++    ..... .+...+..+..+|...|++++|...++++.+..                              
T Consensus        97 ~~~~~~a----l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~------------------------------  141 (275)
T 1xnf_A           97 YEAFDSV----LELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD------------------------------  141 (275)
T ss_dssp             HHHHHHH----HHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------------
T ss_pred             HHHHHHH----HhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC------------------------------
Confidence            7777776    33221 245666777777777777777777777776642                              


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCc
Q 043204          286 EALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVP  365 (504)
Q Consensus       286 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  365 (504)
                              |+.......+..+...|++++|...+.+...... ++... ..++..+...++.++|...+++ ....  .|
T Consensus       142 --------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~a~~~~~~-~~~~--~~  208 (275)
T 1xnf_A          142 --------PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD-KEQWG-WNIVEFYLGNISEQTLMERLKA-DATD--NT  208 (275)
T ss_dssp             --------TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC-CCSTH-HHHHHHHTTSSCHHHHHHHHHH-HCCS--HH
T ss_pred             --------CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-cchHH-HHHHHHHHHhcCHHHHHHHHHH-Hhcc--cc
Confidence                    1222222222333444667777777766555422 22222 2355555666666666666665 2221  11


Q ss_pred             c-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHH
Q 043204          366 T-----VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVL  426 (504)
Q Consensus       366 ~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  426 (504)
                      +     ...+..+...|...|++++|...|++..+.   .|+.  +.....++...|++++|.+.+
T Consensus       209 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          209 SLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN---NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             cccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            1     344555555555666666666666655532   2321  222233444555555554443

>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=6e-13  Score=120.10  Aligned_cols=233  Identities=12%  Similarity=0.071  Sum_probs=152.1

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR-LNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      ...|+.+...+...|++++|++.|++..+... -+...|+.+..++...|+ +++|+..|+++    ...... +...|.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~a----l~l~P~-~~~a~~  170 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAI----IEEQPK-NYQVWH  170 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHH----HHHCTT-CHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHH----HHHCCC-CHHHHH
Confidence            44566666777777778888887777776532 245667777777777775 78887777777    443322 566777


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+..++...|++++|+..|+++++....                                     +...|..+..++...
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~-------------------------------------~~~a~~~lg~~~~~~  213 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAK-------------------------------------NYHAWQHRQWVIQEF  213 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTT-------------------------------------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCcc-------------------------------------CHHHHHHHHHHHHHc
Confidence            7777777777777777777777765322                                     556666676777777


Q ss_pred             CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc-CCCHHHH-----HHHHHHHHhcCCCCccHHHHHHHHHHHHhcC--
Q 043204          310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK-DGMVDEA-----LEVIEEEMVKGTFVPTVRVYNILLKGLCDAG--  381 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  381 (504)
                      |++++|+..|+++++..+. +...|+.+..++.. .|..++|     +..|++++...  +-+...|..+...+...|  
T Consensus       214 g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~  290 (382)
T 2h6f_A          214 KLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLS  290 (382)
T ss_dssp             TCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGG
T ss_pred             CChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCcc
Confidence            7777777777777776543 56667777777776 4544555     36666655543  234556666666666666  


Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcC---------cHHHHHHHHHHH-Hhc
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDG---------RFLEASRVLEEM-LIR  432 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---------~~~~A~~~~~~~-~~~  432 (504)
                      ++++|++.+.++ +  ....+...+..+..+|.+.|         ..++|.++++++ .+.
T Consensus       291 ~~~~a~~~~~~~-~--~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          291 KYPNLLNQLLDL-Q--PSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEK  348 (382)
T ss_dssp             GCHHHHHHHHHH-T--TTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHh-c--cCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHh
Confidence            567777777666 2  23344556666777776653         246777777776 443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.61  E-value=5.5e-14  Score=130.01  Aligned_cols=282  Identities=11%  Similarity=-0.037  Sum_probs=146.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc-hhcHHHHHHHHhccCChhHHHHHHHHhhcC----CCCc-cHHHHHHH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN-GPVYASMIGILSESNRITEMKEVIDQMKGD----SCEC-KDSVFATA   86 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l   86 (504)
                      .....+...|++++|+..|+++.+..|+-.+. ..++..+...+...|++++|...+++....    +-.| ...++..+
T Consensus        14 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   93 (406)
T 3sf4_A           14 LEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   93 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            34455556666666666666666654431000 234555556666666666666666554321    1011 12334555


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      ...+...|++++|...+++..+.....                               ........++..+...|...|+
T Consensus        94 a~~~~~~g~~~~A~~~~~~al~~~~~~-------------------------------~~~~~~~~~~~~l~~~~~~~g~  142 (406)
T 3sf4_A           94 GNTLKVLGNFDEAIVCCQRHLDISREL-------------------------------NDKVGEARALYNLGNVYHAKGK  142 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHH-------------------------------TCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhc-------------------------------ccccchHHHHHHHHHHHHHcCC
Confidence            555555555555555555443321000                               0000012234444444555555


Q ss_pred             --------------------HHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC
Q 043204          167 --------------------SDLALHVFQEMDFQ----GCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS  221 (504)
Q Consensus       167 --------------------~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  221 (504)
                                          +++|.+.+++..+.    +..| ...++..+...+...|++++|...+++........+.
T Consensus       143 ~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  222 (406)
T 3sf4_A          143 SFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD  222 (406)
T ss_dssp             TCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCC
Confidence                                55555555443321    1011 1245666777777888888888888777544333322


Q ss_pred             CcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHH
Q 043204          222 GED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS  300 (504)
Q Consensus       222 ~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  300 (504)
                      .+. ..++..+...|...|++++|...+++.........+.                               .....++.
T Consensus       223 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~  271 (406)
T 3sf4_A          223 KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDR-------------------------------AVEAQSCY  271 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------------------HHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCc-------------------------------hHHHHHHH
Confidence            111 3367777888888888888888888776531110000                               00134555


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC----Cc-chhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          301 AMAIDLYNEGRIVEGDKVLDEMRTKGF----WP-SLVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       301 ~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      .+...+...|++++|...+++..+...    .+ ...++..+...|...|++++|...+++
T Consensus       272 ~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          272 SLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            666666677777777777766654210    00 133455555566666666666666655

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.60  E-value=1.2e-13  Score=127.84  Aligned_cols=214  Identities=12%  Similarity=-0.020  Sum_probs=132.4

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHHhcCC--------------------HHHH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC-YPD----RESYHILMKGLCNDRR--------------------LNEA  205 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~--------------------~~~a  205 (504)
                      ..++..+...|...|++++|...+++..+... .++    ..++..+...+...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            44566667777777777777777776654210 011    3467778888888899                    8999


Q ss_pred             HHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHH
Q 043204          206 THLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLI  284 (504)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  284 (504)
                      ...+++........+..+. ..++..+...|...|++++|...+++..+.....+..                       
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----------------------  223 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK-----------------------  223 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCH-----------------------
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCc-----------------------
Confidence            9988887554444433222 3467778888888999999999888876531110000                       


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCc-chhhHHHHHHHHhcCCCHHHHHHHHHHHHh
Q 043204          285 NEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKG----FWP-SLVMYEAKLAALFKDGMVDEALEVIEEEMV  359 (504)
Q Consensus       285 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  359 (504)
                              ......+..+...+...|++++|...+++..+..    ..+ ...++..+...|...|++++|...+++++.
T Consensus       224 --------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          224 --------AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             --------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence                    0012356666777777788888888887765421    110 134556666777777777777777766443


Q ss_pred             cCCCCcc----HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 043204          360 KGTFVPT----VRVYNILLKGLCDAGNSAVAVMYLKKMSK  395 (504)
Q Consensus       360 ~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  395 (504)
                      .....++    ..++..+...|...|++++|.+.+++..+
T Consensus       296 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          296 IAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2111111    33555566666666777777666666543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.60  E-value=9.3e-14  Score=118.50  Aligned_cols=200  Identities=15%  Similarity=0.043  Sum_probs=155.6

Q ss_pred             CCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         5 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      ......+..+...+...|++++|+..|+++.+..|.   +...+..+...+...|++++|.+.++++.+.. +.+..++.
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   95 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE---DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYY   95 (243)
T ss_dssp             ----------------------CCTTHHHHHTTCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHH
Confidence            344566777888899999999999999999998776   78889999999999999999999999998876 56778899


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .+...+...|++++|.+.|+.+.+... .+...+..+...+...|++++|...++++....  +.+...+..+...+...
T Consensus        96 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~  172 (243)
T 2q7f_A           96 GAGNVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANE  172 (243)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHc
Confidence            999999999999999999999887653 346788889999999999999999999987653  23466788899999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      |++++|.+.|+++.+.. +.+..++..+..++...|++++|...++++
T Consensus       173 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  219 (243)
T 2q7f_A          173 GMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKA  219 (243)
T ss_dssp             TCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999999988764 336778899999999999999999999988

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.60  E-value=1.4e-13  Score=127.45  Aligned_cols=285  Identities=14%  Similarity=0.012  Sum_probs=202.4

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR----ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DI  225 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~  225 (504)
                      ...+..+...+...|++++|...|++..+.+.. +.    ..+..+...+...|++++|...+++........+..+ ..
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            344555667788888888998888888776322 22    4677788888889999999999888865433333322 34


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID  305 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  305 (504)
                      .++..+...|...|++++|...+++..+......                +               .......+..+...
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~----------------~---------------~~~~~~~~~~l~~~  175 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLG----------------D---------------RLSEGRALYNLGNV  175 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT----------------C---------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhh----------------c---------------hHHHHHHHHHHHHH
Confidence            6778888889999999999999988765311000                0               00123456666777


Q ss_pred             HHhcCC-----------------hhHHHHHHHHHHHC----CC-CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC
Q 043204          306 LYNEGR-----------------IVEGDKVLDEMRTK----GF-WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF  363 (504)
Q Consensus       306 ~~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  363 (504)
                      +...|+                 +++|...+++..+.    +. .....++..+...|...|++++|...+++++....-
T Consensus       176 ~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  255 (411)
T 4a1s_A          176 YHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIARE  255 (411)
T ss_dssp             HHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            777788                 88888888776542    11 113357778888999999999999999885543211


Q ss_pred             Ccc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC----chhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCc-
Q 043204          364 VPT----VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA----NGETYGILVDGLCRDGRFLEASRVLEEMLIRSY-  434 (504)
Q Consensus       364 ~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-  434 (504)
                      .++    ..++..+...|...|++++|...+++..+...-..    ...++..+...|...|++++|.+.+++..+..- 
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  335 (411)
T 4a1s_A          256 FGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE  335 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            112    23677888899999999999999998876411111    145678888999999999999999998876411 


Q ss_pred             ----CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          435 ----WPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       435 ----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                          .....++..+...|...|++++|.+.+++..+.
T Consensus       336 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          336 LGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence                111346778888999999999999999999854

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.59  E-value=2e-13  Score=122.59  Aligned_cols=284  Identities=11%  Similarity=-0.028  Sum_probs=204.7

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc-hhcHHHHHHHHhccCChhHHHHHHHHhhcC----CC-CccHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN-GPVYASMIGILSESNRITEMKEVIDQMKGD----SC-ECKDSVFA   84 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~   84 (504)
                      +......+...|++++|+..|+++.+..|+-.+. ...+..+...+...|++++|.+.+++..+.    +- +....++.
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            3445677889999999999999999987651110 457888899999999999999999887643    21 22345688


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCC-----CCccHHHHHHHHHHHHhcch--------------------HHHHHHHHH
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFN-----CVNWTQSFNTLLKEMVKESK--------------------LEAAHILFL  139 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~  139 (504)
                      .+...+...|++++|...+++..+..     ......++..+...+...|+                    +++|...++
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            88999999999999999999865421     11123477888899999999                    999998888


Q ss_pred             HhhcC----CCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          140 RSCYG----WEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC-YPD----RESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       140 ~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      +....    ........++..+...+...|++++|.+.+++..+... .++    ..++..+...+...|++++|...++
T Consensus       168 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  247 (338)
T 3ro2_A          168 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  247 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            76431    11122345678888899999999999999988765310 011    2367788888999999999999999


Q ss_pred             HHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHH
Q 043204          211 SMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALI  289 (504)
Q Consensus       211 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  289 (504)
                      +........+..+. ..++..+...+...|++++|...+++..+.......                             
T Consensus       248 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~-----------------------------  298 (338)
T 3ro2_A          248 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD-----------------------------  298 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-----------------------------
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCC-----------------------------
Confidence            88654344332221 457778888999999999999999887664110000                             


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 043204          290 RGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTK  325 (504)
Q Consensus       290 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  325 (504)
                        ......++..+...+...|++++|...+++..+.
T Consensus       299 --~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          299 --RIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             --HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             --cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence              0012345666677777788888888888887764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.59  E-value=1.6e-13  Score=123.22  Aligned_cols=283  Identities=13%  Similarity=0.048  Sum_probs=186.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHH
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVI  227 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~  227 (504)
                      .+......+...|++++|...|+++.+.... +    ...+..+...+...|++++|...+++........+..+. ..+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            3444556677778888888888877765321 2    255667777778888888888888777544333332222 456


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 043204          228 YRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLY  307 (504)
Q Consensus       228 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  307 (504)
                      +..+...+...|++++|...+++..+......+.                               ......+..+...+.
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~~~~~  134 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-------------------------------VGEARALYNLGNVYH  134 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCc-------------------------------hHHHHHHHHHHHHHH
Confidence            7777888888888888888888876531110000                               001235555666666


Q ss_pred             hcCC--------------------hhHHHHHHHHHHHC----CCC-cchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          308 NEGR--------------------IVEGDKVLDEMRTK----GFW-PSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       308 ~~~~--------------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                      ..|+                    +++|...+++....    +.. .....+..+...+...|++++|...+++++....
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  214 (338)
T 3ro2_A          135 AKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK  214 (338)
T ss_dssp             HHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            6677                    77777777765432    111 1234677778888889999999988887554321


Q ss_pred             CCc----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc----hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCc
Q 043204          363 FVP----TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN----GETYGILVDGLCRDGRFLEASRVLEEMLIRSY  434 (504)
Q Consensus       363 ~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  434 (504)
                      ..+    ...++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|...+++..+...
T Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          215 EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            111    1236777788888899999999988887654111111    44677788888899999999998888766410


Q ss_pred             -----CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          435 -----WPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       435 -----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                           .....++..+...|...|++++|.+.+++..+.
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          295 ELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                 111346777888888899999999999888753

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.58  E-value=6.4e-13  Score=121.70  Aligned_cols=235  Identities=9%  Similarity=-0.018  Sum_probs=161.8

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchh--cHHHHHHH--HhccCChhHHH-----------HHHHHhhcCCCCccHHH
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGP--VYASMIGI--LSESNRITEMK-----------EVIDQMKGDSCECKDSV   82 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~--~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~~   82 (504)
                      +.+.+++++|..+++++.+..+.+..|..  .|..++..  ..-.++.+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            34689999999999999887555433433  33444322  12223334444           6666665432  22222


Q ss_pred             ------HHHHHHHHHhcCChhHHHHHHHHhhhC----CCCc-cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCC-----
Q 043204           83 ------FATAIRTYARAGQLNEAVSLFKNLSQF----NCVN-WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWE-----  146 (504)
Q Consensus        83 ------~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----  146 (504)
                            +......+...|++++|...|++..+.    +-.+ ...++..+...|...|+++.|...+++......     
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  223566778899999999999988764    2122 346788889999999999999999988764211     


Q ss_pred             CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC
Q 043204          147 VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC-YPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS  221 (504)
Q Consensus       147 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  221 (504)
                      ......+++.+...|...|++++|.+.|++..+... .++    ..++..+...|...|++++|...+++........+.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence            112345778888899999999999999988765310 111    246778888899999999999999988654444444


Q ss_pred             -CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          222 -GEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       222 -~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                       +....++..+..+|.+.|++++|...+++..+.
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  293 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAY  293 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence             334667888889999999999999999887653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=4.3e-12  Score=112.17  Aligned_cols=219  Identities=7%  Similarity=0.030  Sum_probs=178.1

Q ss_pred             hHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc-------cCCh-------hHHHHHHHHhhc-CCCCccHHHHHHHHHH
Q 043204           25 LTALKIFKEAKEKYPNYRHNGPVYASMIGILSE-------SNRI-------TEMKEVIDQMKG-DSCECKDSVFATAIRT   89 (504)
Q Consensus        25 ~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~~l~~~   89 (504)
                      ++|+.+|+++....|.   +...|..++..+..       .|++       ++|..+|++..+ .. +.+...|..++..
T Consensus        33 ~~a~~~~~~al~~~p~---~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~-p~~~~~~~~~~~~  108 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH---HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLL-KKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTT-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            6899999999999887   88899888887763       5886       899999999998 44 5566789999999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHH-HHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHh-hcCCH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQ-SFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLC-QCRRS  167 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~  167 (504)
                      +.+.|++++|..+|++..+..+. +.. +|..++..+.+.|++++|..+|++.....+  ++...|........ ..|++
T Consensus       109 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p--~~~~~~~~~a~~~~~~~~~~  185 (308)
T 2ond_A          109 EESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR--TRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT--CCTHHHHHHHHHHHHTSCCH
T ss_pred             HHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHcCCH
Confidence            99999999999999999986432 233 889999999999999999999999987533  23344444333322 36999


Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC-CCCc--CHHHHHHHHHHHHhcCchhHH
Q 043204          168 DLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQK-GSGE--DIVIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       168 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~--~~~~~~~l~~~~~~~g~~~~a  244 (504)
                      ++|.++|++..+.. +-+...|..++..+.+.|++++|..+|++.    ... ...|  ....|..++....+.|+.+.|
T Consensus       186 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~a----l~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a  260 (308)
T 2ond_A          186 SVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERV----LTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHH----HHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH----HhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999998763 236788888999999999999999999998    554 2344  467888899999999999999


Q ss_pred             HHHHHHHHHcC
Q 043204          245 MQILEKILRKG  255 (504)
Q Consensus       245 ~~~~~~~~~~~  255 (504)
                      ..+++++.+..
T Consensus       261 ~~~~~~a~~~~  271 (308)
T 2ond_A          261 LKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHc
Confidence            99999998864

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.53  E-value=2.4e-12  Score=117.89  Aligned_cols=241  Identities=9%  Similarity=-0.030  Sum_probs=147.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhCC-CCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC-C-cCHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQG-CYPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS-G-EDIVIYR  229 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~-~~~~~~~  229 (504)
                      ....+...|++++|...|++..+.- -.++    ..++..+...+...|+++.|...+++........+. . ....+++
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            5556778899999999998887531 0122    356778888888999999999999888654444332 1 1245778


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+..+|...|++++|.+.+++..+......+.                               .....++..+...+...
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~lg~~y~~~  237 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQP-------------------------------QLMGRTLYNIGLCKNSQ  237 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------------------HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCCh-------------------------------HHHHHHHHHHHHHHHHC
Confidence            88889999999999999998877541110000                               00123566677777777


Q ss_pred             CChhHHHHHHHHHHHC----CC-CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC---CccHHHHHHHHHHHHhcC
Q 043204          310 GRIVEGDKVLDEMRTK----GF-WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF---VPTVRVYNILLKGLCDAG  381 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~  381 (504)
                      |++++|...+++..+.    +. +....++..+...|.+.|++++|...+++++.....   +.....+..+...|...|
T Consensus       238 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~  317 (383)
T 3ulq_A          238 SQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGP  317 (383)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSC
T ss_pred             CCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCC
Confidence            8888888888777662    22 224556667777777777777777777764432110   111122344455555556


Q ss_pred             C---hHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          382 N---SAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       382 ~---~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      +   .++|+.++++..   ........+..+...|...|++++|.+.+++..+
T Consensus       318 ~~~~~~~al~~~~~~~---~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          318 DEEAIQGFFDFLESKM---LYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCc---CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5   444544444431   1111223445555666666666666666665544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=7e-13  Score=107.59  Aligned_cols=166  Identities=8%  Similarity=-0.018  Sum_probs=124.6

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ...|..+...|...|++++|+..|+++.+.+|.   +..+|..+..++.+.|++++|...++...... +.+...+..+.
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN---NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            345677788888888888888888888888776   77788888888888888888888888877765 55666677777


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCH
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS  167 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  167 (504)
                      ..+...++++.|...+....+... .+..++..+...+.+.|++++|+..|++.....  +.+..+|..+..+|.+.|++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHCCCH
Confidence            778888888888888887776542 345667777777778888888888887776542  22455677777777778888


Q ss_pred             HHHHHHHHHhhhC
Q 043204          168 DLALHVFQEMDFQ  180 (504)
Q Consensus       168 ~~a~~~~~~~~~~  180 (504)
                      ++|.+.|++..+.
T Consensus       158 ~~A~~~~~~al~~  170 (184)
T 3vtx_A          158 DEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC
Confidence            8888887777664

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.51  E-value=2.8e-12  Score=117.12  Aligned_cols=320  Identities=11%  Similarity=0.005  Sum_probs=204.1

Q ss_pred             CCCCCCCchHHHHHH--HhcCChhHHHHHHHHHHhcCCCCCcchh--cHHHHHHH--HhccCChhHHH---------HHH
Q 043204            4 RWPRLLTPTYLSQII--KKQKSPLTALKIFKEAKEKYPNYRHNGP--VYASMIGI--LSESNRITEMK---------EVI   68 (504)
Q Consensus         4 ~~p~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~p~~~~~~~--~~~~l~~~--~~~~~~~~~a~---------~~~   68 (504)
                      ..|+...-+.|-..|  ...+++++|.++++++.+..+.+..|..  .|-.++..  ..-.+....+.         +.+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            344444555666677  6899999999999998876544433433  33444432  11112333333         666


Q ss_pred             HHhhcCCCCccHH----HHHHHHHHHHhcCChhHHHHHHHHhhhCCC-----CccHHHHHHHHHHHHhcchHHHHHHHHH
Q 043204           69 DQMKGDSCECKDS----VFATAIRTYARAGQLNEAVSLFKNLSQFNC-----VNWTQSFNTLLKEMVKESKLEAAHILFL  139 (504)
Q Consensus        69 ~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~~~~~~~a~~~~~  139 (504)
                      +.+.....+.+..    .+......+...|++++|+..|++..+...     .....++..+...|...|+++.|...++
T Consensus        86 ~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~  165 (378)
T 3q15_A           86 ETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHIL  165 (378)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            6655432111211    233445567789999999999998875421     1234578889999999999999999998


Q ss_pred             HhhcCC----CCc-chHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHH
Q 043204          140 RSCYGW----EVK-SRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ----GCYP-DRESYHILMKGLCNDRRLNEATHLL  209 (504)
Q Consensus       140 ~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  209 (504)
                      +.....    +.. ....+++.+..+|...|++++|.+.|++..+.    +-.+ ...++..+..+|...|++++|...+
T Consensus       166 ~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~  245 (378)
T 3q15_A          166 QALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHF  245 (378)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            876421    112 13567888999999999999999999887652    1111 1346777888999999999999999


Q ss_pred             HHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHH
Q 043204          210 YSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALI  289 (504)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  289 (504)
                      ++........+.+....++..+..+|.+.|++++|...+++..+......+..                           
T Consensus       246 ~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~---------------------------  298 (378)
T 3q15_A          246 QKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKF---------------------------  298 (378)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSC---------------------------
T ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHH---------------------------
Confidence            99854433334343477888899999999999999999999887533211110                           


Q ss_pred             cCCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCc-chhhHHHHHHHHhcCCCHHHHHHHHHHHH
Q 043204          290 RGGIPSLASYSAMAIDLYNEGR---IVEGDKVLDEMRTKGFWP-SLVMYEAKLAALFKDGMVDEALEVIEEEM  358 (504)
Q Consensus       290 ~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  358 (504)
                           ....+..+...+...++   +.+|+..+++   .+..| ....+..+...|...|++++|...|++++
T Consensus       299 -----~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          299 -----YKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             -----HHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence                 11122333333333455   5555555554   22222 23345567777777888888877777644

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=1.2e-12  Score=122.76  Aligned_cols=214  Identities=9%  Similarity=-0.073  Sum_probs=174.4

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCCh-hHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRI-TEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSL  102 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (504)
                      +++++..++......|.   +...+..+...+...|++ ++|.+.|++..+.. +.+..+|..+..+|...|++++|.+.
T Consensus        84 ~~~al~~l~~~~~~~~~---~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQV---EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHTTCCC---CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccCch---hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56677777777766554   788888999999999999 99999999998876 66678899999999999999999999


Q ss_pred             HHHhhhCCCCccHHHHHHHHHHHHhc---------chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc--------C
Q 043204          103 FKNLSQFNCVNWTQSFNTLLKEMVKE---------SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC--------R  165 (504)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~  165 (504)
                      |+...+.+  |+..++..+...+...         |++++|+..|++.....  +.+...|..+..+|...        |
T Consensus       160 ~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          160 FSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccc
Confidence            99988876  4468888889999998         99999999999987653  23466788888888888        8


Q ss_pred             CHHHHHHHHHHhhhCCCC--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhH
Q 043204          166 RSDLALHVFQEMDFQGCY--PDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQD  243 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  243 (504)
                      ++++|++.|++..+....  -+...|..+..+|...|++++|.+.|++.    ..... .+...+..+..++...|++++
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a----l~l~p-~~~~a~~~l~~~~~~lg~~~e  310 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQA----AALDP-AWPEPQQREQQLLEFLSRLTS  310 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHCT-TCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHhCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            999999999998875320  37788889999999999999999999988    34322 256778888888888888888


Q ss_pred             HHHHHHH
Q 043204          244 AMQILEK  250 (504)
Q Consensus       244 a~~~~~~  250 (504)
                      |.+.+..
T Consensus       311 Ai~~~~~  317 (474)
T 4abn_A          311 LLESKGK  317 (474)
T ss_dssp             HHHHTTT
T ss_pred             HHHHhcc
Confidence            8876544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.49  E-value=1.6e-12  Score=115.30  Aligned_cols=174  Identities=16%  Similarity=0.064  Sum_probs=106.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhC-------CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC------CCC
Q 043204           81 SVFATAIRTYARAGQLNEAVSLFKNLSQF-------NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG------WEV  147 (504)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~  147 (504)
                      .++..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...+++....      ...
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            34555555555555555555555554432       22223344555555555566666665555554432      112


Q ss_pred             cchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC------CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC-
Q 043204          148 KSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ------GCYP-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQK-  219 (504)
Q Consensus       148 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  219 (504)
                      +....++..+...|...|++++|.+.|++..+.      +-.| ....+..+...+...|++++|...++++....... 
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            234556677777777778888777777776653      1112 34556777788888888888888888875432222 


Q ss_pred             -CCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          220 -GSGE-DIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       220 -~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                       +..| ...++..+..+|...|++++|.+.++++.+.
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1122 3456778888899999999999999888763

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.48  E-value=7.1e-12  Score=101.61  Aligned_cols=173  Identities=12%  Similarity=0.069  Sum_probs=146.4

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHH
Q 043204          295 SLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILL  374 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  374 (504)
                      +...|..+...+...|++++|+..|++..+..+. +...+..+..+|.+.|++++|...+.......  +.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD--TTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--chhHHHHHHHH
Confidence            6678889999999999999999999999987644 77889999999999999999999999866554  34566777778


Q ss_pred             HHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCH
Q 043204          375 KGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQ  454 (504)
Q Consensus       375 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  454 (504)
                      ..+...++++.+...+.+..+.  .+.+...+..+..+|.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCH
Confidence            8899999999999999998875  23456788889999999999999999999999864 44567889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHH
Q 043204          455 YEAVMWLEEMISQAKLPDISV  475 (504)
Q Consensus       455 ~~a~~~~~~~~~~~~~p~~~~  475 (504)
                      ++|++.|++..+.  .|+...
T Consensus       158 ~~A~~~~~~al~~--~p~~a~  176 (184)
T 3vtx_A          158 DEAVKYFKKALEK--EEKKAK  176 (184)
T ss_dssp             HHHHHHHHHHHHT--THHHHH
T ss_pred             HHHHHHHHHHHhC--CccCHH
Confidence            9999999999854  565543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.48  E-value=3.9e-11  Score=109.50  Aligned_cols=239  Identities=12%  Similarity=-0.029  Sum_probs=141.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHHhhhCC-CCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC-Cc-CHHHHH
Q 043204          157 LMDVLCQCRRSDLALHVFQEMDFQG-CYPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS-GE-DIVIYR  229 (504)
Q Consensus       157 l~~~~~~~~~~~~a~~~~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~-~~~~~~  229 (504)
                      ....+...|++++|...|++..+.- -.++    ..++..+...|...|+++.|...+++........+. .+ ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            4445677888999998888876531 0122    346777888888899999999998888654443332 11 255778


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+..+|...|++++|.+.+++..+......+.                               .....++..+...+...
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~lg~~y~~~  235 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQND-------------------------------RFIAISLLNIANSYDRS  235 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCH-------------------------------HHHHHHHHHHHHHHHHC
Confidence            88889999999999999998876531100000                               00224566666777777


Q ss_pred             CChhHHHHHHHHHHH-----CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCC---CccHHHHHHHHHHHHhcC
Q 043204          310 GRIVEGDKVLDEMRT-----KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTF---VPTVRVYNILLKGLCDAG  381 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~  381 (504)
                      |++++|...+++..+     .... ...++..+...|.+.|++++|...+++++.....   +.....+..+...|...+
T Consensus       236 ~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~  314 (378)
T 3q15_A          236 GDDQMAVEHFQKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETV  314 (378)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSC
T ss_pred             CCHHHHHHHHHHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCC
Confidence            888888888777765     3222 3455666666677777777777777664443221   111223333444444455


Q ss_pred             C---hHHHHHHHHHHHHhcCCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          382 N---SAVAVMYLKKMSKQVGCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       382 ~---~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      +   +.+|+..++..    +..| ....+..+...|...|++++|.+.|++..+
T Consensus       315 ~~~~~~~al~~~~~~----~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          315 DERKIHDLLSYFEKK----NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             CHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhC----CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5   44444444442    1111 122344555555566666666655555543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.46  E-value=1.2e-10  Score=102.78  Aligned_cols=220  Identities=9%  Similarity=0.034  Sum_probs=127.1

Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHH-------hcCCH-------HHHHHHHHHHHHHHhhCCCCcCHHHHHHHHH
Q 043204          168 DLALHVFQEMDFQGCYPDRESYHILMKGLC-------NDRRL-------NEATHLLYSMFWRISQKGSGEDIVIYRTLLF  233 (504)
Q Consensus       168 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~  233 (504)
                      ++|..+|++..... +-+...|..++..+.       +.|++       ++|..+|++.    ...-.+.+...|..++.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rA----l~~~~p~~~~~~~~~~~  107 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERA----ISTLLKKNMLLYFAYAD  107 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHH----HTTTTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHH----HHHhCcccHHHHHHHHH
Confidence            56666666666542 224555655555544       23554       6777777766    33111224556667777


Q ss_pred             HHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCCh
Q 043204          234 ALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLA-SYSAMAIDLYNEGRI  312 (504)
Q Consensus       234 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~  312 (504)
                      .+.+.|++++|.++|+++++..  |.                                   +.. .|..+...+.+.|++
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~~--p~-----------------------------------~~~~~~~~~~~~~~~~~~~  150 (308)
T 2ond_A          108 YEESRMKYEKVHSIYNRLLAIE--DI-----------------------------------DPTLVYIQYMKFARRAEGI  150 (308)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSS--SS-----------------------------------CTHHHHHHHHHHHHHHHCH
T ss_pred             HHHhcCCHHHHHHHHHHHHhcc--cc-----------------------------------CccHHHHHHHHHHHHhcCH
Confidence            7777777777777777766531  11                                   122 555566666666777


Q ss_pred             hHHHHHHHHHHHCCCCcchhhHHHHHHHH-hcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHH
Q 043204          313 VEGDKVLDEMRTKGFWPSLVMYEAKLAAL-FKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLK  391 (504)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  391 (504)
                      ++|..+|++..+.+. ++...|....... ...|+.++|..+|++++...  +.+...|..++..+.+.|++++|..+|+
T Consensus       151 ~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~  227 (308)
T 2ond_A          151 KSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFE  227 (308)
T ss_dssp             HHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            777777777666532 2333333322221 12567777777777655543  2345566666666667777777777777


Q ss_pred             HHHHhcCCCCc--hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 043204          392 KMSKQVGCVAN--GETYGILVDGLCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       392 ~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  432 (504)
                      +......+.|+  ...|..++..+.+.|+.+.|..+++++.+.
T Consensus       228 ~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          228 RVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            76654123432  345666666666677777777777776664

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=4.1e-12  Score=112.69  Aligned_cols=240  Identities=13%  Similarity=0.089  Sum_probs=135.8

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcC-----CCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcC------C-CC
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKY-----PNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGD------S-CE   77 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~   77 (504)
                      ++..+...+...|++++|+..|+++.+..     +.......++..+...+...|++++|...+++..+.      + .+
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            34556677777777777777777777630     011124456677777777777777777777776643      1 12


Q ss_pred             ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC------C-CCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC------
Q 043204           78 CKDSVFATAIRTYARAGQLNEAVSLFKNLSQF------N-CVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG------  144 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------  144 (504)
                      ....++..+...+...|++++|...|++..+.      + .+....++..+...+...|++++|...|++....      
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence            23445677777777777777777777766543      1 1223445666777777777777777777776542      


Q ss_pred             CCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-------CCCCCHhhH-------HHHHHHHHhcCCHHHHHHHHH
Q 043204          145 WEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-------GCYPDRESY-------HILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       145 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~p~~~~~-------~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      ...+....++..+..+|...|++++|.+.|+++.+.       ...+.....       ..+...+...+.+.++...+.
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  268 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYK  268 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC----
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Confidence            112223455666777777777777777777777763       111111111       111122223334444444444


Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          211 SMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ..    ... ...+..++..+..+|.+.|++++|.+.|++..+.
T Consensus       269 ~~----~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          269 AC----KVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hc----CCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            33    111 1223556777777888888888888888777653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.43  E-value=1.8e-10  Score=104.98  Aligned_cols=278  Identities=15%  Similarity=0.017  Sum_probs=152.3

Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccH----HHHHHHHHHHHhcchHHHHHHHHHHhhcCC---C-CcchHHHHHHHHH
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWT----QSFNTLLKEMVKESKLEAAHILFLRSCYGW---E-VKSRIQSLNLLMD  159 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~~l~~  159 (504)
                      ..+...|++++|...+++........+.    .+++.+...+...|++++|...+++.....   + ......++..+..
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            3444556666666665554443221111    134445555556666666666666544211   1 0111233556677


Q ss_pred             HHhhcCCHHHHHHHHHHhhhC----CCC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHH
Q 043204          160 VLCQCRRSDLALHVFQEMDFQ----GCY--P-DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLL  232 (504)
Q Consensus       160 ~~~~~~~~~~a~~~~~~~~~~----~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~  232 (504)
                      .+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|...+++........+......++..+.
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            788888888888888776542    211  2 234556677788889999999999988854333333222345677888


Q ss_pred             HHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 043204          233 FALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRI  312 (504)
Q Consensus       233 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  312 (504)
                      ..+...|++++|...+++.......+......                              ...........+...|++
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~------------------------------~~~~~~~~~~~~~~~g~~  231 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDW------------------------------ISNANKVRVIYWQMTGDK  231 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHH------------------------------HHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhH------------------------------HHHHHHHHHHHHHHCCCH
Confidence            88999999999999999887642111100000                              000001222335567888


Q ss_pred             hHHHHHHHHHHHCCCCcc---hhhHHHHHHHHhcCCCHHHHHHHHHHHHhc---CCCCccH-HHHHHHHHHHHhcCChHH
Q 043204          313 VEGDKVLDEMRTKGFWPS---LVMYEAKLAALFKDGMVDEALEVIEEEMVK---GTFVPTV-RVYNILLKGLCDAGNSAV  385 (504)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~-~~~~~l~~~~~~~~~~~~  385 (504)
                      ++|...+++.......+.   ...+..+...+...|++++|...+++....   .+..++. ..+..+..++...|+.++
T Consensus       232 ~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  311 (373)
T 1hz4_A          232 AAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSD  311 (373)
T ss_dssp             HHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHH
Confidence            888888777655332111   123445556666667777776666653221   1111111 133344445555555555


Q ss_pred             HHHHHHHHHH
Q 043204          386 AVMYLKKMSK  395 (504)
Q Consensus       386 a~~~~~~~~~  395 (504)
                      |...+++...
T Consensus       312 A~~~l~~al~  321 (373)
T 1hz4_A          312 AQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=1.5e-11  Score=115.49  Aligned_cols=213  Identities=12%  Similarity=0.005  Sum_probs=163.8

Q ss_pred             hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCCh-hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHH
Q 043204           61 ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQL-NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFL  139 (504)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  139 (504)
                      ++++...++...... +.+...+..+...+...|++ ++|++.|++..+.+. .+..+|..+...|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            556667777666554 55777888888899999999 999999998887653 346788889999999999999999999


Q ss_pred             HhhcCCCCcchHHHHHHHHHHHhhc---------CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc--------CCH
Q 043204          140 RSCYGWEVKSRIQSLNLLMDVLCQC---------RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCND--------RRL  202 (504)
Q Consensus       140 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------~~~  202 (504)
                      +....   .|+...+..+...+...         |++++|++.|++..+... -+...|..+..+|...        |++
T Consensus       162 ~al~~---~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          162 GALTH---CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHTT---CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHhh---CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchH
Confidence            88754   35567888888888888         999999999998887642 3577888888888888        889


Q ss_pred             HHHHHHHHHHHHHHhhCCC--CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHH
Q 043204          203 NEATHLLYSMFWRISQKGS--GEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGA  280 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  280 (504)
                      ++|...|++.    .....  ..+...|..+..+|...|++++|.+.|++..+....                       
T Consensus       238 ~~A~~~~~~a----l~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-----------------------  290 (474)
T 4abn_A          238 QQALSAYAQA----EKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-----------------------  290 (474)
T ss_dssp             HHHHHHHHHH----HHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-----------------------
T ss_pred             HHHHHHHHHH----HHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-----------------------
Confidence            9999999888    33322  036788888889999999999999999988876321                       


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 043204          281 KSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLD  320 (504)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  320 (504)
                                    +...+..+...+...|++++|+..+.
T Consensus       291 --------------~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          291 --------------WPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             --------------CHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence                          44556666666666677777766543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.40  E-value=5e-10  Score=102.05  Aligned_cols=281  Identities=15%  Similarity=0.001  Sum_probs=166.1

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE----SYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE-DIVIYR  229 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~  229 (504)
                      ......+...|++++|...+++........+..    +++.+...+...|++++|...+++........+... ...++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            334445667888999999888877653222222    455666777889999999999988855434433211 123456


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHh
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP-SLASYSAMAIDLYN  308 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~  308 (504)
                      .+...+...|++++|...+++..+........                              ..| ....+..+...+..
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~------------------------------~~~~~~~~~~~la~~~~~  147 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLE------------------------------QLPMHEFLVRIRAQLLWA  147 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCT------------------------------TSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccc------------------------------cCcHHHHHHHHHHHHHHH
Confidence            77788899999999999999887632100000                              001 12334445556666


Q ss_pred             cCChhHHHHHHHHHHHCCCC--c--chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc-HHHHH----HHHHHHHh
Q 043204          309 EGRIVEGDKVLDEMRTKGFW--P--SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT-VRVYN----ILLKGLCD  379 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~----~l~~~~~~  379 (504)
                      .|++++|...+++.......  +  ...++..+...+...|++++|...+++.......... .....    ..+..+..
T Consensus       148 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (373)
T 1hz4_A          148 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  227 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHH
Confidence            67777777777776653221  1  1234556666777777777777777764432111111 11111    22234667


Q ss_pred             cCChHHHHHHHHHHHHhcCCCCc---hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc----CcCCCc-chHHHHHHHHHcc
Q 043204          380 AGNSAVAVMYLKKMSKQVGCVAN---GETYGILVDGLCRDGRFLEASRVLEEMLIR----SYWPCV-ETYNVLIRGLCSI  451 (504)
Q Consensus       380 ~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~  451 (504)
                      .|++++|...++..... ...+.   ...+..+...+...|++++|...+++....    |..++. ..+..+..++...
T Consensus       228 ~g~~~~A~~~~~~a~~~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~  306 (373)
T 1hz4_A          228 TGDKAAAANWLRHTAKP-EFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQA  306 (373)
T ss_dssp             TTCHHHHHHHHHHSCCC-CCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhCCCC-CCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHh
Confidence            77777777777776543 11111   123456667777778888877777776543    111112 2445556667777


Q ss_pred             CCHHHHHHHHHHHHH
Q 043204          452 GKQYEAVMWLEEMIS  466 (504)
Q Consensus       452 g~~~~a~~~~~~~~~  466 (504)
                      |+.++|...+++...
T Consensus       307 g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          307 GRKSDAQRVLLDALK  321 (373)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            888887777777653

>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=99.40  E-value=6.6e-12  Score=101.85  Aligned_cols=162  Identities=13%  Similarity=0.007  Sum_probs=93.1

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34445555555566666666665555544 3444555555555666666666666666555443 223445555555666


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEAT  206 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  206 (504)
                      ..|++++|...++++....  +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            6666666666666555432  2234455566666666666666666666665543 224556666666666777777777


Q ss_pred             HHHHHHH
Q 043204          207 HLLYSMF  213 (504)
Q Consensus       207 ~~~~~~~  213 (504)
                      ..++++.
T Consensus       165 ~~~~~~~  171 (186)
T 3as5_A          165 PHFKKAN  171 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766663

>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=99.37  E-value=1.8e-11  Score=119.40  Aligned_cols=165  Identities=11%  Similarity=0.067  Sum_probs=142.7

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ..+++.|..+|.+.|++++|++.|+++.+..|+   +..+|..+..+|.+.|++++|++.|++..+.. +.+..+|..+.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~---~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPE---FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            456788899999999999999999999999887   78899999999999999999999999999886 66778899999


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCH
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRS  167 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  167 (504)
                      .++...|++++|++.|++..+.+. .+..+|..+...|.+.|++++|+..|++..+..+  -+...+..+..++...|++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P--~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLKP--DFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS--CCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CChHHHhhhhhHHHhcccH
Confidence            999999999999999999887663 3477889999999999999999999999876532  2456788899999999999


Q ss_pred             HHHHHHHHHhhh
Q 043204          168 DLALHVFQEMDF  179 (504)
Q Consensus       168 ~~a~~~~~~~~~  179 (504)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888877654

>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=99.36  E-value=1.3e-11  Score=107.61  Aligned_cols=236  Identities=13%  Similarity=0.061  Sum_probs=161.0

Q ss_pred             HHhcCChhHHHHHHHHHHhcC-----CCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcC------CC-CccHHHHHH
Q 043204           18 IKKQKSPLTALKIFKEAKEKY-----PNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGD------SC-ECKDSVFAT   85 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~-----p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~   85 (504)
                      ....|++++|+..|+++.+..     ++......++..+...+...|++++|...+++..+.      +- +....++..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            345678888888888887641     111224667889999999999999999999998754      21 234457899


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhC------C-CCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC------CCCcchHH
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQF------N-CVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG------WEVKSRIQ  152 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~  152 (504)
                      +...+...|++++|.+.|++..+.      . .+....++..+...+...|++++|...+++....      ...+....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999987754      1 2334668889999999999999999999988653      22233467


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhC-------CCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCC--CC
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQ-------GCYPDR-ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKG--SG  222 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~  222 (504)
                      ++..+..+|...|++++|.++|++..+.       ...+.. ..+..+...+...+....+.. +..+.......+  ..
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCH
Confidence            7888999999999999999999988753       122232 233333333333232222222 222211101111  12


Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          223 EDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       223 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ....++..+..+|...|++++|..++++..+.
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            23557888999999999999999999988753

>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=99.32  E-value=1.7e-10  Score=93.44  Aligned_cols=165  Identities=17%  Similarity=0.112  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH
Q 043204           81 SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV  160 (504)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  160 (504)
                      ..+..+...+...|++++|...|+.+.+... .+..++..+...+...|++++|...++++....  +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~   85 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHH
Confidence            4456666777777777777777777665542 345666777777777777777777777766542  2244566667777


Q ss_pred             HhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc
Q 043204          161 LCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGK  240 (504)
Q Consensus       161 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  240 (504)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++    .... +.+...+..+..++...|+
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~----~~~~-~~~~~~~~~la~~~~~~~~  159 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIA----LGLR-PNEGKVHRAIAFSYEQMGR  159 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHH----HhcC-ccchHHHHHHHHHHHHcCC
Confidence            777777777777777776653 235566666777777777777777777776    3332 3356677777777777777


Q ss_pred             hhHHHHHHHHHHHc
Q 043204          241 IQDAMQILEKILRK  254 (504)
Q Consensus       241 ~~~a~~~~~~~~~~  254 (504)
                      +++|.+.+++..+.
T Consensus       160 ~~~A~~~~~~~~~~  173 (186)
T 3as5_A          160 HEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            77777777777664

>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=99.30  E-value=3.2e-10  Score=95.31  Aligned_cols=201  Identities=15%  Similarity=0.021  Sum_probs=91.6

Q ss_pred             hccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC
Q 043204          267 DLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM  346 (504)
Q Consensus       267 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  346 (504)
                      ....+...|++++|...|+..++....++...+..+..++...|++++|+..|++..+..+. +...+..+...|...|+
T Consensus        13 ~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~   91 (228)
T 4i17_A           13 EGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSAAYRDMKN   91 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHccc
Confidence            34444455555555555555555443234444444444455555555555555555544322 34444555555555555


Q ss_pred             HHHHHHHHHHHHhcCCCCccH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc---hhhHHHHHHHHhhcCc
Q 043204          347 VDEALEVIEEEMVKGTFVPTV-----RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN---GETYGILVDGLCRDGR  418 (504)
Q Consensus       347 ~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~  418 (504)
                      +++|...+++++...+-.+..     ..|..+...+...|++++|++.|++..+   ..|+   ...+..+..+|...| 
T Consensus        92 ~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~~~~~~~~-  167 (228)
T 4i17_A           92 NQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLGVLFYNNG-  167 (228)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHHHHHHHHH-
Confidence            555555555544332111111     2344444445555555555555555543   2333   233444444443222 


Q ss_pred             HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 043204          419 FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA  481 (504)
Q Consensus       419 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  481 (504)
                          ..+++++...+ ..+...|....  ....+.+++|+..+++..+.  .|+......++.
T Consensus       168 ----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~~~l~  221 (228)
T 4i17_A          168 ----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIKQMQD  221 (228)
T ss_dssp             ----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             ----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHHHHHH
Confidence                22233333321 11122222211  12234458888888888854  466554444443

>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=99.29  E-value=8.4e-11  Score=114.80  Aligned_cols=171  Identities=10%  Similarity=0.050  Sum_probs=146.9

Q ss_pred             CCCCcc-hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHH
Q 043204           39 PNYRHN-GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQS  117 (504)
Q Consensus        39 p~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  117 (504)
                      |+..|+ ..+|+.|..++.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|+..|++..+.+. .+..+
T Consensus         2 pgs~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a   79 (723)
T 4gyw_A            2 PGSCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADA   79 (723)
T ss_dssp             ----CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             CCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHH
Confidence            343444 6789999999999999999999999999886 66778899999999999999999999999988763 34789


Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043204          118 FNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLC  197 (504)
Q Consensus       118 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  197 (504)
                      |..+...+...|++++|++.|++..+..  +-+...|+.+..+|...|++++|++.|++..+... -+...+..+..++.
T Consensus        80 ~~nLg~~l~~~g~~~~A~~~~~kAl~l~--P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~  156 (723)
T 4gyw_A           80 YSNMGNTLKEMQDVQGALQCYTRAIQIN--PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQ  156 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHH
Confidence            9999999999999999999999988653  22467889999999999999999999999988642 25788999999999


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 043204          198 NDRRLNEATHLLYSMFW  214 (504)
Q Consensus       198 ~~~~~~~a~~~~~~~~~  214 (504)
                      ..|++++|.+.++++.+
T Consensus       157 ~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          157 IVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HTTCCTTHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHH
Confidence            99999999999988754

>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=99.28  E-value=2.8e-10  Score=95.71  Aligned_cols=208  Identities=9%  Similarity=-0.040  Sum_probs=156.0

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      ++..+......+...|++++|+..|+++.+..|  .++...+..+..++...|++++|.+.|++..+.. +.+..++..+
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTN--NQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccC--CCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            345667778889999999999999999999865  1377777779999999999999999999999887 6677889999


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccH-------HHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc--hHHHHHHH
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWT-------QSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS--RIQSLNLL  157 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l  157 (504)
                      ..++...|++++|+..|++..+..+. +.       .+|..+...+...|++++|...|++.....  +.  +...|..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHHHHH
Confidence            99999999999999999998876533 23       457888888999999999999999998652  22  35667777


Q ss_pred             HHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHH
Q 043204          158 MDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLF  233 (504)
Q Consensus       158 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~  233 (504)
                      ..+|...|     ...++++...+ ..+...|....  ....+.+++|...+++.    .+.... +..+...+..
T Consensus       160 ~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a----~~l~p~-~~~~~~~l~~  222 (228)
T 4i17_A          160 GVLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEA----VTLSPN-RTEIKQMQDQ  222 (228)
T ss_dssp             HHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHH----HHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHH----hhcCCC-CHHHHHHHHH
Confidence            77776554     34455555543 22344444443  34556789999999998    444332 4444444433

>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=99.28  E-value=5.3e-11  Score=103.77  Aligned_cols=206  Identities=14%  Similarity=0.055  Sum_probs=134.1

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC------CC-CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC-----C
Q 043204          295 SLASYSAMAIDLYNEGRIVEGDKVLDEMRTK------GF-WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG-----T  362 (504)
Q Consensus       295 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~  362 (504)
                      ....+..+...+...|++++|...+++..+.      +- +....++..+...|...|++++|...+++++...     .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            4566777888888889999999999888764      22 2245678888889999999999999998855441     1


Q ss_pred             -CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhc-----CCCC-chhhHHHHHHHHhhcCcHHHHHHHHHHHHhc---
Q 043204          363 -FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQV-----GCVA-NGETYGILVDGLCRDGRFLEASRVLEEMLIR---  432 (504)
Q Consensus       363 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  432 (504)
                       .+....++..+...|...|++++|...+++..+..     +..| ...++..+..+|...|++++|.+.++++.+.   
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             12345678888888999999999999998887641     1122 3457788889999999999999999988764   


Q ss_pred             ----CcCCCc-chHHHHHHHHHccCCH------HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCchhHHHHHHHHh
Q 043204          433 ----SYWPCV-ETYNVLIRGLCSIGKQ------YEAVMWLEEMISQAKLPD-ISVWSSLVASVCCNTADLNVCRKTLEQL  500 (504)
Q Consensus       433 ----~~~~~~-~~~~~l~~~~~~~g~~------~~a~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~~  500 (504)
                          ...+.. ..|..+...+...+..      ..+...++...  ...|+ ...+..+...|...|+ +++|..++++.
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~la~~~~~~g~-~~~A~~~~~~a  278 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACK--VDSPTVNTTLRSLGALYRRQGK-LEAAHTLEDCA  278 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCC--CCCHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHH
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHcCC-HHHHHHHHHHH
Confidence                112332 3333333333332222      22222222221  11233 2455666666666655 99999999887


Q ss_pred             hcC
Q 043204          501 SSC  503 (504)
Q Consensus       501 ~~~  503 (504)
                      ++.
T Consensus       279 l~~  281 (283)
T 3edt_B          279 SRN  281 (283)
T ss_dssp             HTT
T ss_pred             HHh
Confidence            653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.23  E-value=2.7e-08  Score=93.25  Aligned_cols=379  Identities=9%  Similarity=-0.070  Sum_probs=197.4

Q ss_pred             hcC-ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCC-hh
Q 043204           20 KQK-SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQ-LN   97 (504)
Q Consensus        20 ~~~-~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~   97 (504)
                      +.| +.+.|..+|+++....|.                  |+++.+..+|++....  .|+...|...+....+.++ .+
T Consensus         6 ~~~~~i~~aR~vyer~l~~~P~------------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~   65 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLYMS------------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKF   65 (493)
T ss_dssp             ------CCHHHHHHHHHHHHHT------------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----
T ss_pred             HcCcchHHHHHHHHHHHHHCCC------------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHH
Confidence            356 488888888888887653                  7799999999998885  4688888888887777663 45


Q ss_pred             HHHHHHHHhhhC-CC-CccHHHHHHHHHHHH----hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHH
Q 043204           98 EAVSLFKNLSQF-NC-VNWTQSFNTLLKEMV----KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLAL  171 (504)
Q Consensus        98 ~a~~~~~~~~~~-~~-~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  171 (504)
                      ....+|+..... |. ..+...|...+..+.    ..++.+.+..+|++....+ ...-...|...... ....+...+.
T Consensus        66 ~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P-~~~~~~lw~~Y~~f-E~~~~~~~~~  143 (493)
T 2uy1_A           66 KLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTP-MGSLSELWKDFENF-ELELNKITGK  143 (493)
T ss_dssp             CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSC-CTTHHHHHHHHHHH-HHHHCHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhCh-hhhHHHHHHHHHHH-HHHhccccHH
Confidence            677788776642 32 234566766666543    3567888999999887632 11111222222111 1111111122


Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-------chhHH
Q 043204          172 HVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQG-------KIQDA  244 (504)
Q Consensus       172 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------~~~~a  244 (504)
                      +++.+..                     +.+..|..+++.+......    .+...|...+..-...+       ..+.+
T Consensus       144 ~~~~~~~---------------------~~y~~ar~~y~~~~~~~~~----~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv  198 (493)
T 2uy1_A          144 KIVGDTL---------------------PIFQSSFQRYQQIQPLIRG----WSVKNAARLIDLEMENGMKLGGRPHESRM  198 (493)
T ss_dssp             HHHHHHH---------------------HHHHHHHHHHHHHHHHHHT----CSHHHHHHHHHHHHTCTTCCCHHHHHHHH
T ss_pred             HHHHHHh---------------------HHHHHHHHHHHHHHHHHhh----ccHHHHHHHHHHHhcCCccCcchhhHHHH
Confidence            2211110                     1122222222222110000    01122222222211110       01223


Q ss_pred             HHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 043204          245 MQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  324 (504)
                      ..+|++++...  |.........+..+...|+.+.|..++.+.+..   |.......   .|......++.   ++.+.+
T Consensus       199 ~~~ye~al~~~--p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~~---~~~l~~  267 (493)
T 2uy1_A          199 HFIHNYILDSF--YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEAV---YGDLKR  267 (493)
T ss_dssp             HHHHHHHHHHT--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTHH---HHHHHH
T ss_pred             HHHHHHHHHcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhHH---HHHHHH
Confidence            34444444432  222222222233334444555555555555544   22211111   11111111111   111111


Q ss_pred             C---------C---CCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh-cCChHHHHHHHH
Q 043204          325 K---------G---FWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD-AGNSAVAVMYLK  391 (504)
Q Consensus       325 ~---------~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~  391 (504)
                      .         +   .......|...+....+.+..+.|..+|+.+ ...  ..+...|......-.. .++.+.|..+|+
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~--~~~~~v~i~~A~lE~~~~~d~~~ar~ife  344 (493)
T 2uy1_A          268 KYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE--GVGPHVFIYCAFIEYYATGSRATPYNIFS  344 (493)
T ss_dssp             HTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS--CCCHHHHHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             HHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC--CCChHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            0         0   0012245666666666778899999999985 322  2344444432222222 346999999999


Q ss_pred             HHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          392 KMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       392 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      ...+.++-  ++..+...++...+.|+.+.|..+|+++.     .....|...+.--...|+.+.+.++++++.+
T Consensus       345 ~al~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          345 SGLLKHPD--STLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99886332  33456667777788899999999999873     2466777787776778999999998888874

>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=99.22  E-value=2.8e-10  Score=91.19  Aligned_cols=162  Identities=10%  Similarity=0.035  Sum_probs=91.0

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+..|+++.+..|+   +...+..+..++...|++++|...|++..+.. + +...+..+...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~---~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~-p-~~~~~~~~~~~   82 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQS---RGDVKLAKADCLLETKQFELAQELLATIPLEY-Q-DNSYKSLIAKL   82 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHT---SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG-C-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc-C-ChHHHHHHHHH
Confidence            3455666777788888888888887777666   67777777788888888888888888777654 2 44333222211


Q ss_pred             -HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHH
Q 043204           90 -YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSD  168 (504)
Q Consensus        90 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  168 (504)
                       +...+....|+..|+...+.++ .+...+..+...+...|++++|...|+++....+...+...+..+...+...|+.+
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HHHhhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence             1122223335555555554431 22444555555555555555555555555433221122334445555555555555


Q ss_pred             HHHHHHHHh
Q 043204          169 LALHVFQEM  177 (504)
Q Consensus       169 ~a~~~~~~~  177 (504)
                      +|...|++.
T Consensus       162 ~A~~~y~~a  170 (176)
T 2r5s_A          162 AIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             cHHHHHHHH
Confidence            555555443

>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=99.21  E-value=2.3e-10  Score=112.29  Aligned_cols=173  Identities=9%  Similarity=0.013  Sum_probs=111.9

Q ss_pred             HhcCChhHHHHHHHHHH--------hcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           19 KKQKSPLTALKIFKEAK--------EKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        19 ~~~~~~~~A~~~~~~~~--------~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      ...|++++|++.|+++.        +..|+   +...+..+..++...|++++|.+.|++..+.. +.+...|..+..++
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~---~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSE---SVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTT---CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccccc---chhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHH
Confidence            56677777777777777        55454   56667777777777777777777777777665 55566677777777


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ...|++++|++.|++..+.+. .+...+..+...+.+.|++++ +..|++.....  +.+...|..+..++.+.|++++|
T Consensus       478 ~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A  553 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGA  553 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777766552 235566677777777777777 77777766432  12345666677777777777777


Q ss_pred             HHHHHHhhhCCCCCC-HhhHHHHHHHHHhcCC
Q 043204          171 LHVFQEMDFQGCYPD-RESYHILMKGLCNDRR  201 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  201 (504)
                      .+.|++..+.  .|+ ...+..+..++...++
T Consensus       554 ~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          554 VRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            7777777654  233 3455555555544443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.21  E-value=4.9e-10  Score=92.48  Aligned_cols=170  Identities=8%  Similarity=0.007  Sum_probs=126.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHH----------------HHHHHhccCChhHHHHHHHHhhcCCC
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYAS----------------MIGILSESNRITEMKEVIDQMKGDSC   76 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~   76 (504)
                      .....+...|++++|+..|+++.+..|+   +...|..                +..++.+.|++++|...|++..+.. 
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   84 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIALNID---RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-   84 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCHH---HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC---ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-
Confidence            3456677899999999999999998776   6667777                8888899999999999999988876 


Q ss_pred             CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch--HHHHHHHHHHhhcCCCCcchHHHH
Q 043204           77 ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK--LEAAHILFLRSCYGWEVKSRIQSL  154 (504)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~  154 (504)
                      |.+...+..+..++...|++++|+..|++..+.++ .+..++..+...|...|+  ...+...++....   ..|....+
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~a~  160 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS---PTKMQYAR  160 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C---CCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC---CCchhHHH
Confidence            66778888899999999999999999999888763 346677788777766554  3455556655532   23333344


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHIL  192 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  192 (504)
                      ..+..++...|++++|...|++..+.  .|+......+
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            44556667788899999999988875  5665444433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.20  E-value=8.2e-10  Score=96.57  Aligned_cols=158  Identities=8%  Similarity=-0.068  Sum_probs=71.7

Q ss_pred             HhccCChhHHHHHHHHhhcC----CCCcc-HHHHHHHHHHHHhcCChhHHHHHHHHhhhCC----CCc-cHHHHHHHHHH
Q 043204           55 LSESNRITEMKEVIDQMKGD----SCECK-DSVFATAIRTYARAGQLNEAVSLFKNLSQFN----CVN-WTQSFNTLLKE  124 (504)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~ll~~  124 (504)
                      |...|++++|.+.|++..+.    +-+++ ..+|+.+..+|...|++++|+..|++..+..    -.. -..+++.+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34455555555555544332    21111 2345555555555555555555555443211    000 12344555555


Q ss_pred             HHhc-chHHHHHHHHHHhhcCCC---Ccc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHh------hHHHHH
Q 043204          125 MVKE-SKLEAAHILFLRSCYGWE---VKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE------SYHILM  193 (504)
Q Consensus       125 ~~~~-~~~~~a~~~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~------~~~~l~  193 (504)
                      |... |++++|+..|++......   ..+ ...+++.+...+.+.|++++|+..|++..+........      .|..+.
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            5553 555555555555442110   000 02344555555555555555555555555432211110      334444


Q ss_pred             HHHHhcCCHHHHHHHHHHH
Q 043204          194 KGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       194 ~~~~~~~~~~~a~~~~~~~  212 (504)
                      .++...|++++|...|++.
T Consensus       207 ~~~~~~g~~~~A~~~~~~a  225 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEG  225 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            4555555555555555554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.17  E-value=6.4e-10  Score=95.65  Aligned_cols=210  Identities=8%  Similarity=-0.114  Sum_probs=114.6

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--CccHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECKDSVFATAIRT   89 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~   89 (504)
                      -.+...+.+.|++++|+..|+++.+..|+......++..+..++.+.|++++|...|++..+...  +....++..+..+
T Consensus        19 ~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~   98 (261)
T 3qky_A           19 FERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMC   98 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHH
Confidence            34456666777777777777777777665222255666677777777777777777777776531  1223445666666


Q ss_pred             HHh--------cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHH
Q 043204           90 YAR--------AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVL  161 (504)
Q Consensus        90 ~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  161 (504)
                      +..        .|++++|+..|+++.+..+.. ......+.......+.                   ....+..+...|
T Consensus        99 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~-~~~~~a~~~~~~~~~~-------------------~~~~~~~la~~~  158 (261)
T 3qky_A           99 YYKLSPPYELDQTDTRKAIEAFQLFIDRYPNH-ELVDDATQKIRELRAK-------------------LARKQYEAARLY  158 (261)
T ss_dssp             HHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTC-TTHHHHHHHHHHHHHH-------------------HHHHHHHHHHHH
T ss_pred             HHHhcccccccchhHHHHHHHHHHHHHHCcCc-hhHHHHHHHHHHHHHH-------------------HHHHHHHHHHHH
Confidence            666        677777777777766543221 1111111000000000                   001124456667


Q ss_pred             hhcCCHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHHHhhCCCC-c-CHHH
Q 043204          162 CQCRRSDLALHVFQEMDFQGCYP--DRESYHILMKGLCND----------RRLNEATHLLYSMFWRISQKGSG-E-DIVI  227 (504)
Q Consensus       162 ~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~-~-~~~~  227 (504)
                      .+.|++++|+..|+++.+.....  ....+..+..+|...          |++++|...|+++.    ..... + -...
T Consensus       159 ~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~----~~~p~~~~~~~a  234 (261)
T 3qky_A          159 ERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLL----QIFPDSPLLRTA  234 (261)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHH----HHCTTCTHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHH----HHCCCChHHHHH
Confidence            77777777777777776542111  123455555666544          67777777777763    22211 1 1345


Q ss_pred             HHHHHHHHHhcCchhHHH
Q 043204          228 YRTLLFALCDQGKIQDAM  245 (504)
Q Consensus       228 ~~~l~~~~~~~g~~~~a~  245 (504)
                      ...+...+.+.++++++.
T Consensus       235 ~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          235 EELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHhhhhh
Confidence            555555555555555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.16  E-value=6.3e-08  Score=82.84  Aligned_cols=180  Identities=7%  Similarity=-0.044  Sum_probs=127.6

Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC-CcCHHHHHHHHHHHHhcCchhHHHHHH
Q 043204          170 ALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS-GEDIVIYRTLLFALCDQGKIQDAMQIL  248 (504)
Q Consensus       170 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~  248 (504)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+.    ...+. .-+...+..++..+.+.|+.+.|.+.+
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~----i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l  159 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEG----IDNDEAEGTTELLLLAIEVALLNNNVSTASTIF  159 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHH----HTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHH----hccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            678888887665 456666678888899999999999999877    55544 235678888899999999999999999


Q ss_pred             HHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC-----ChhhHHHHHHHHHh----cCChhHHHHHH
Q 043204          249 EKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP-----SLASYSAMAIDLYN----EGRIVEGDKVL  319 (504)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~ll~~~~~----~~~~~~a~~~~  319 (504)
                      +.|.+..                                      |     +..+...+..++..    .++..+|..+|
T Consensus       160 ~~~~~~~--------------------------------------~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f  201 (310)
T 3mv2_B          160 DNYTNAI--------------------------------------EDTVSGDNEMILNLAESYIKFATNKETATSNFYYY  201 (310)
T ss_dssp             HHHHHHS--------------------------------------CHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHH
T ss_pred             HHHHhcC--------------------------------------ccccccchHHHHHHHHHHHHHHhCCccHHHHHHHH
Confidence            9997752                                      2     24444555555333    24899999999


Q ss_pred             HHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC----C----CCccHHHHHHHHHHHHhcCChHHHHHHHH
Q 043204          320 DEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG----T----FVPTVRVYNILLKGLCDAGNSAVAVMYLK  391 (504)
Q Consensus       320 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  391 (504)
                      +++.+..  |+..+...++.++.+.|++++|.+.++.+....    .    -+.+..++..+|......|+  +|.++++
T Consensus       202 ~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~  277 (310)
T 3mv2_B          202 EELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTN  277 (310)
T ss_dssp             HHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHH
T ss_pred             HHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHH
Confidence            9987653  443334455558888899999999988633221    0    13356666566655666676  7888888


Q ss_pred             HHHHh
Q 043204          392 KMSKQ  396 (504)
Q Consensus       392 ~~~~~  396 (504)
                      ++.+.
T Consensus       278 qL~~~  282 (310)
T 3mv2_B          278 QLVKL  282 (310)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.15  E-value=4.1e-09  Score=92.09  Aligned_cols=238  Identities=16%  Similarity=0.100  Sum_probs=161.0

Q ss_pred             hHHHHHHHHHHHcCCCCCcchhhhhhccccCCC-C-ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 043204          242 QDAMQILEKILRKGLKAPKSRRHRIDLCPCNDG-E-DIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVL  319 (504)
Q Consensus       242 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  319 (504)
                      .+|.+++.+..+.- + ++..++.+    +... + +++.|...+...               ...|...|++++|...|
T Consensus         2 ~~a~~~~~~a~k~~-~-~~~~~~~~----~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~   60 (292)
T 1qqe_A            2 SDPVELLKRAEKKG-V-PSSGFMKL----FSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSF   60 (292)
T ss_dssp             CCHHHHHHHHHHHS-S-CCCTHHHH----HSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHH
T ss_pred             CcHHHHHHHHHHHh-C-cCCCcchh----cCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHH
Confidence            35677777776652 2 21112122    1221 2 477887777665               34567789999999999


Q ss_pred             HHHHHC----CCCc-chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc----HHHHHHHHHHHHhc-CChHHHHHH
Q 043204          320 DEMRTK----GFWP-SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT----VRVYNILLKGLCDA-GNSAVAVMY  389 (504)
Q Consensus       320 ~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~-~~~~~a~~~  389 (504)
                      .+..+.    |-.+ ...+|+.+..+|.+.|++++|+..+++++.-..-..+    ..++..+...|... |++++|+..
T Consensus        61 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~  140 (292)
T 1qqe_A           61 LKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDC  140 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHH
Confidence            887653    3222 2568889999999999999999999986543211111    35788888999996 999999999


Q ss_pred             HHHHHHhcCCCCc----hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcc------hHHHHHHHHHccCCHHHHHH
Q 043204          390 LKKMSKQVGCVAN----GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVE------TYNVLIRGLCSIGKQYEAVM  459 (504)
Q Consensus       390 ~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~  459 (504)
                      |++..+...-..+    ..++..+...|.+.|++++|...|++..+........      .|..+..++...|++++|..
T Consensus       141 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  220 (292)
T 1qqe_A          141 YELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9998764111111    3467888999999999999999999999864222211      46777788999999999999


Q ss_pred             HHHHHHHcCCCCCHH------HHHHHHHHHhc-CCCchhHHHHHHHHhhc
Q 043204          460 WLEEMISQAKLPDIS------VWSSLVASVCC-NTADLNVCRKTLEQLSS  502 (504)
Q Consensus       460 ~~~~~~~~~~~p~~~------~~~~ll~~~~~-~~~~~~~a~~~~~~~~~  502 (504)
                      .+++..+  +.|+..      .+..++.++.. ..+++++|...++++.+
T Consensus       221 ~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          221 TLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            9999883  445432      24445555432 33458888888876543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.15  E-value=4.8e-09  Score=90.14  Aligned_cols=189  Identities=9%  Similarity=-0.071  Sum_probs=130.4

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc---HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCC--CccHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK---DSVFATAIRTYARAGQLNEAVSLFKNLSQFNC--VNWTQSF  118 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~  118 (504)
                      +...+..+...+.+.|++++|...|+.+.+.. +.+   ...+..+..++.+.|++++|+..|+...+..+  +....++
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            55667777788888888999999998888765 333   56778888888888888888888888877532  1224566


Q ss_pred             HHHHHHHHh--------cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHH
Q 043204          119 NTLLKEMVK--------ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYH  190 (504)
Q Consensus       119 ~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  190 (504)
                      ..+...+..        .|++++|...|+++....+..+.  ....+..              +..+...    -...+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~--~~~a~~~--------------~~~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHEL--VDDATQK--------------IRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTT--HHHHHHH--------------HHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchh--HHHHHHH--------------HHHHHHH----HHHHHH
Confidence            677777777        88888888888887654322221  1111111              1111100    011245


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc----------CchhHHHHHHHHHHHcC
Q 043204          191 ILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ----------GKIQDAMQILEKILRKG  255 (504)
Q Consensus       191 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~  255 (504)
                      .+...|.+.|++++|...|+++....  .........+..+..+|...          |++++|...|+++.+..
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            67788999999999999999984321  11222567888888888866          99999999999999874

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.15  E-value=1.4e-09  Score=94.70  Aligned_cols=166  Identities=9%  Similarity=-0.046  Sum_probs=127.3

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|...++.+......+ .........
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~-~~~~~~~~~  193 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDT-RYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSH-HHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcch-HHHHHHHHH
Confidence            66677788888889999999999999988876 6677788888899999999999999999887665422 222333333


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP-DRESYHILMKGLCNDRRL  202 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~  202 (504)
                      .+...++.+.|...+++.....  +.+...+..+...+...|++++|.+.|+++.+..... +...+..+...+...|+.
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            4667777888888888877653  2345677888889999999999999999888764221 256788888889999999


Q ss_pred             HHHHHHHHHHH
Q 043204          203 NEATHLLYSMF  213 (504)
Q Consensus       203 ~~a~~~~~~~~  213 (504)
                      ++|...|++.+
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            99988888764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.14  E-value=1.4e-09  Score=82.61  Aligned_cols=126  Identities=13%  Similarity=0.145  Sum_probs=72.8

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+...|++++|+.+|+++.+..|.   +...+..+...+...|++++|..+++++.+.+ +.+...+..+...+
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR---SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc---chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            445566666667777777777776666544   55566666666666666666666666666554 34455555666666


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      ...|++++|.+.++.+.+... .+..++..+...+...|++++|...++++
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~  129 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKA  129 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHH
Confidence            666666666666666554332 12334444444444445555444444444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.12  E-value=2.8e-09  Score=89.21  Aligned_cols=179  Identities=12%  Similarity=0.018  Sum_probs=116.6

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH---HHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD---SVFATAI   87 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~   87 (504)
                      +-.+...+.+.|++++|+..|+++.+..|.-.....++..+..++.+.|++++|+..|+++.+.. |.+.   ..+..+.
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHHHHHH
Confidence            34456778899999999999999999877633334678888999999999999999999998765 2222   2444444


Q ss_pred             HHHHh------------------cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcc
Q 043204           88 RTYAR------------------AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKS  149 (504)
Q Consensus        88 ~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (504)
                      .++..                  .|++++|...|+.+.+..+.. ..+......    .+...      ..+        
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~-~~a~~a~~~----l~~~~------~~~--------  146 (225)
T 2yhc_A           86 LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNS-QYTTDATKR----LVFLK------DRL--------  146 (225)
T ss_dssp             HHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTC-TTHHHHHHH----HHHHH------HHH--------
T ss_pred             HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCC-hhHHHHHHH----HHHHH------HHH--------
Confidence            55543                  355666666666666543221 111111100    00000      000        


Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          150 RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR----ESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       150 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                       ......+...|.+.|++++|...|+++.+.  .|+.    ..+..+..++.+.|++++|.+.++.+
T Consensus       147 -~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l  210 (225)
T 2yhc_A          147 -AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKII  210 (225)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence             001134566788888888888888888775  2332    45777788888888888888888877

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.10  E-value=2.4e-08  Score=85.42  Aligned_cols=146  Identities=16%  Similarity=0.066  Sum_probs=67.2

Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204           99 AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+.....+..-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            445555544433 2223333455555555555555555555543221111234444555555555555555555555555


Q ss_pred             hCCCCC-----CHhhHHHHHHHHH--hcC--CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          179 FQGCYP-----DRESYHILMKGLC--NDR--RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       179 ~~~~~p-----~~~~~~~l~~~~~--~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      +.  .|     +..+...|+.++.  ..|  ++++|..+|+++    .+.  .|+..+...++.++.+.|++++|.+.++
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El----~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~  235 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEEL----SQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVE  235 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHH----HTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHH----HHh--CCCcccHHHHHHHHHHcCCHHHHHHHHH
Confidence            43  33     2334444443322  122  555555555555    222  2232222223335555555555555555


Q ss_pred             HHHH
Q 043204          250 KILR  253 (504)
Q Consensus       250 ~~~~  253 (504)
                      .+.+
T Consensus       236 ~l~~  239 (310)
T 3mv2_B          236 LLLS  239 (310)
T ss_dssp             HHHS
T ss_pred             HHHH
Confidence            4443

>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=99.06  E-value=4.1e-10  Score=87.37  Aligned_cols=145  Identities=9%  Similarity=-0.010  Sum_probs=85.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      |..++...|++++|+..++......|.   +...+..+...|.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~---~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQ---KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHH---HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcc---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            344455666777777777777665443   45556666777777777777777777777665 55666677777777777


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHH-HHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHIL-FLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      |++++|+..|+...+.++ .+..++..+...|.+.|+.++|... +++.....+  -+..+|......+...|
T Consensus        79 ~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P--~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP--GSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST--TCHHHHHHHHHHHHTCC
T ss_pred             CchHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc--CCHHHHHHHHHHHHHhC
Confidence            777777777777666542 2345566666666666666554443 354443211  12334444444444444

>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=99.06  E-value=1.2e-08  Score=77.28  Aligned_cols=128  Identities=18%  Similarity=0.207  Sum_probs=76.0

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHH
Q 043204          334 YEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGL  413 (504)
Q Consensus       334 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  413 (504)
                      +..+...+...|++++|..+++++....  +.+...+..+...+...|++++|...++++.+. . +.+...+..+...+
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC--CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHH
Confidence            4455555666666666666666533332  234445555666666666666666666666554 1 22344556666666


Q ss_pred             hhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          414 CRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       414 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            66666666666666666543 23445566666666667777777777666664

>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=1.8e-08  Score=83.26  Aligned_cols=174  Identities=10%  Similarity=0.009  Sum_probs=125.9

Q ss_pred             hHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC----ChhHHH
Q 043204           25 LTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG----QLNEAV  100 (504)
Q Consensus        25 ~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~  100 (504)
                      .+|++.|++..+.  +   +..++..+...+...+++++|.++|++..+.|   ++..+..+...|.. +    ++++|.
T Consensus         3 ~eA~~~~~~aa~~--g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            3 TEPGSQYQQQAEA--G---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             -CTTHHHHHHHHT--T---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             chHHHHHHHHHHC--C---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHH
Confidence            4577888888876  5   78888888888888899999999999888765   55667777777777 6    888888


Q ss_pred             HHHHHhhhCCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh----cCCHHHHHH
Q 043204          101 SLFKNLSQFNCVNWTQSFNTLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ----CRRSDLALH  172 (504)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~  172 (504)
                      +.|+...+.+   +...+..|...|..    .+++++|..+|++.........+...+..|...|..    .+++++|..
T Consensus        74 ~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           74 QLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            8888887765   34556677777766    678888888888887542211125566777777777    678888888


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHhc-C-----CHHHHHHHHHHH
Q 043204          173 VFQEMDFQGCYPDRESYHILMKGLCND-R-----RLNEATHLLYSM  212 (504)
Q Consensus       173 ~~~~~~~~~~~p~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~  212 (504)
                      .|++..+.  ..+...+..|...|... |     ++++|..+|++.
T Consensus       151 ~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A  194 (212)
T 3rjv_A          151 YFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVS  194 (212)
T ss_dssp             HHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHH
Confidence            88888765  23445566666666543 2     788888888777

>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=99.05  E-value=4.9e-09  Score=83.89  Aligned_cols=163  Identities=11%  Similarity=-0.005  Sum_probs=111.7

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...+..+...+.+.|++++|...|++..+.. |.+...+..+..++...|++++|+..|+...+...  +...+..+...
T Consensus         6 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~   82 (176)
T 2r5s_A            6 DEQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKL   82 (176)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHH
Confidence            3456677778888999999999999888765 56677788888899999999999999988876553  33322222111


Q ss_pred             -HHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcCCH
Q 043204          125 -MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP-DRESYHILMKGLCNDRRL  202 (504)
Q Consensus       125 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~  202 (504)
                       +...++...|...+++.....  +.+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  160 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQG  160 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSS
T ss_pred             HHHhhcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCC
Confidence             112222334566777666432  2235566777777888888888888888877764322 245677777777888888


Q ss_pred             HHHHHHHHHH
Q 043204          203 NEATHLLYSM  212 (504)
Q Consensus       203 ~~a~~~~~~~  212 (504)
                      ++|...|++.
T Consensus       161 ~~A~~~y~~a  170 (176)
T 2r5s_A          161 NAIASKYRRQ  170 (176)
T ss_dssp             CHHHHHHHHH
T ss_pred             CcHHHHHHHH
Confidence            8888777766

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.03  E-value=1.7e-08  Score=83.13  Aligned_cols=171  Identities=12%  Similarity=-0.061  Sum_probs=121.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHH----------------HHHHHhcCCCHHHHHHHHHHHHhcCCCCc
Q 043204          302 MAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEA----------------KLAALFKDGMVDEALEVIEEEMVKGTFVP  365 (504)
Q Consensus       302 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  365 (504)
                      ....+...|++++|+..|++..+..+. +...+..                +..+|.+.|++++|+..|++++...  +.
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~   86 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA--PN   86 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CC
Confidence            344566678888888888887775322 3445555                8889999999999999999977665  44


Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCc--HHHHHHHHHHHHhcCcCCCcchHHH
Q 043204          366 TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGR--FLEASRVLEEMLIRSYWPCVETYNV  443 (504)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~~  443 (504)
                      +...+..+..++...|++++|...|++..+.  -+.+...+..+..+|...|+  .+.+...++....  ..|....+..
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~  162 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYR  162 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHH
Confidence            6778889999999999999999999999875  23356678888888766554  3445555555542  1222333444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 043204          444 LIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA  481 (504)
Q Consensus       444 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  481 (504)
                      ...++...|++++|+..|++..  .+.|+......+.+
T Consensus       163 ~g~~~~~~~~~~~A~~~~~~al--~l~P~~~~~~~l~~  198 (208)
T 3urz_A          163 DGLSKLFTTRYEKARNSLQKVI--LRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHT--TTSCCHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHH--HhCCCHHHHHHHHH
Confidence            5566777899999999999999  45788765555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.02  E-value=1.2e-07  Score=82.08  Aligned_cols=226  Identities=8%  Similarity=-0.033  Sum_probs=176.2

Q ss_pred             HHHHhcC-ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC--ChhHHHHHHHHhhcCCCCccHHHHHHHHHHH--
Q 043204           16 QIIKKQK-SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN--RITEMKEVIDQMKGDSCECKDSVFATAIRTY--   90 (504)
Q Consensus        16 ~~~~~~~-~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--   90 (504)
                      .+..+.| ..++|+.+++.++..+|.   +..+|+.--.++...+  ++++++++++.+.... +-+..+|+.--.++  
T Consensus        40 ~a~~~~~e~s~~aL~~t~~~L~~nP~---~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~  115 (306)
T 3dra_A           40 LALMKAEEYSERALHITELGINELAS---HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQ  115 (306)
T ss_dssp             HHHHHTTCCSHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCcH---HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHH
Confidence            3333445 446899999999999888   8888999999998888  9999999999999876 66667787776666  


Q ss_pred             --Hhc---CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHH--HHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           91 --ARA---GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLE--AAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        91 --~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                        ...   +++++++.+++.+.+.+.. +-.+|+.-.-.+.+.|.++  +++..++++....  +-|...|+.-...+.+
T Consensus       116 ~~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~  192 (306)
T 3dra_A          116 IMELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFS  192 (306)
T ss_dssp             HHHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHS
T ss_pred             HHHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHh
Confidence              555   7899999999999987744 4677877777778888887  9999999998653  3356677766666666


Q ss_pred             cCC------HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH-HHHHHHHHHHHHhhCC--CCcCHHHHHHHHHH
Q 043204          164 CRR------SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNE-ATHLLYSMFWRISQKG--SGEDIVIYRTLLFA  234 (504)
Q Consensus       164 ~~~------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~  234 (504)
                      .+.      ++++++.++.+....+. |...|+.+-..+.+.|+... +..+..++    ...+  ...+...+..++.+
T Consensus       193 l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~----~~~~~~~~~s~~al~~la~~  267 (306)
T 3dra_A          193 KKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQF----VDLEKDQVTSSFALETLAKI  267 (306)
T ss_dssp             SGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTT----EEGGGTEESCHHHHHHHHHH
T ss_pred             ccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHH----HhccCCCCCCHHHHHHHHHH
Confidence            666      88999999988877543 78888888888888777444 54565555    3322  23467888899999


Q ss_pred             HHhcCchhHHHHHHHHHHH
Q 043204          235 LCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       235 ~~~~g~~~~a~~~~~~~~~  253 (504)
                      |.+.|+.++|.++++.+.+
T Consensus       268 ~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          268 YTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHccCCHHHHHHHHHHHHh
Confidence            9999999999999999876

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.02  E-value=1.6e-08  Score=88.00  Aligned_cols=180  Identities=13%  Similarity=0.038  Sum_probs=139.0

Q ss_pred             hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHH
Q 043204           61 ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLR  140 (504)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  140 (504)
                      .+...+.+....    +.+...+..+...+...|++++|...|+...+..+ .+...+..+...+.+.|++++|...+++
T Consensus       102 ~~~l~~~l~~~l----p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~  176 (287)
T 3qou_A          102 EEAIRALLDXVL----PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXT  176 (287)
T ss_dssp             HHHHHHHHHHHS----CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHc----CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            334444454443    55667788888999999999999999999988763 3467888999999999999999999998


Q ss_pred             hhcCCCCcchHHH-HHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC
Q 043204          141 SCYGWEVKSRIQS-LNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQK  219 (504)
Q Consensus       141 ~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  219 (504)
                      +....   |+... .......+...++.+.|...+++..... +.+...+..+...+...|++++|...|.++    ...
T Consensus       177 ~~~~~---p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~----l~~  248 (287)
T 3qou_A          177 IPLQD---QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGH----LRX  248 (287)
T ss_dssp             SCGGG---CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHH
T ss_pred             Cchhh---cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHH----Hhc
Confidence            87542   33322 2233334667788888999999888764 336788889999999999999999999998    444


Q ss_pred             CCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          220 GSG-EDIVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       220 ~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      ... .+...+..++..+...|+.++|...+++...
T Consensus       249 ~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          249 DLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            333 2477899999999999999999999887654

>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=99.02  E-value=3.9e-08  Score=81.20  Aligned_cols=176  Identities=11%  Similarity=-0.015  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCC----CHHHHHHHH
Q 043204          279 GAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDG----MVDEALEVI  354 (504)
Q Consensus       279 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  354 (504)
                      +|.+.|+...+.|   +...+..+...+...+++++|+..|++..+.|   +...+..|...|.. +    ++++|...|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4666777777653   56677777777777888888888888888765   56667777777777 5    788888888


Q ss_pred             HHHHhcCCCCccHHHHHHHHHHHHh----cCChHHHHHHHHHHHHhcCCC-CchhhHHHHHHHHhh----cCcHHHHHHH
Q 043204          355 EEEMVKGTFVPTVRVYNILLKGLCD----AGNSAVAVMYLKKMSKQVGCV-ANGETYGILVDGLCR----DGRFLEASRV  425 (504)
Q Consensus       355 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~----~g~~~~A~~~  425 (504)
                      +++.. .+   +...+..|...|..    .+++++|+++|++..+. +.. .+...+..|...|..    .++.++|.+.
T Consensus        77 ~~A~~-~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  151 (212)
T 3rjv_A           77 EKAVE-AG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASEY  151 (212)
T ss_dssp             HHHHH-TT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHH
T ss_pred             HHHHH-CC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            87443 22   55566667777766    77888888888887754 211 025677777777777    7788888888


Q ss_pred             HHHHHhcCcCCCcchHHHHHHHHHcc-C-----CHHHHHHHHHHHHHcC
Q 043204          426 LEEMLIRSYWPCVETYNVLIRGLCSI-G-----KQYEAVMWLEEMISQA  468 (504)
Q Consensus       426 ~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~  468 (504)
                      |++..+.  ..+...+..|...|... |     ++++|.++|++..+.|
T Consensus       152 ~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          152 FKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            8888775  23555666676666543 2     7888888888877664

>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=99.01  E-value=6.1e-09  Score=102.26  Aligned_cols=173  Identities=9%  Similarity=-0.043  Sum_probs=113.7

Q ss_pred             hccCChhHHHHHHHHhh--------cCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh
Q 043204           56 SESNRITEMKEVIDQMK--------GDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK  127 (504)
Q Consensus        56 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (504)
                      ...|++++|.+.+++..        +.. +.+...+..+..++...|++++|+..|++..+.+ +.+...+..+...+..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            66777778887777776        443 4455667777777777788888888877777654 2345667777777777


Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATH  207 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  207 (504)
                      .|++++|...|++.....+.  +...|..+..++.+.|++++ ++.|++..+.+. -+...|..+..++.+.|++++|.+
T Consensus       480 ~g~~~~A~~~~~~al~l~P~--~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG--ELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT--CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHH
Confidence            77777777777777654222  34566677777777777777 777777766532 255667777777777777777777


Q ss_pred             HHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCc
Q 043204          208 LLYSMFWRISQKGSGED-IVIYRTLLFALCDQGK  240 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  240 (504)
                      .|+++    .+  ..|+ ...+..+..++...++
T Consensus       556 ~~~~a----l~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEV----PP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTS----CT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHhh----cc--cCcccHHHHHHHHHHHHccCC
Confidence            77755    33  2333 4555566666655443

>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=99.01  E-value=6.1e-09  Score=100.55  Aligned_cols=154  Identities=13%  Similarity=-0.008  Sum_probs=118.7

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAV  100 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (504)
                      .|++++|+..|+++.+..|+   +...|..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ---DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             -------------------C---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            47899999999999998776   78899999999999999999999999999887 667888999999999999999999


Q ss_pred             HHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc---CCHHHHHHHHHHh
Q 043204          101 SLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC---RRSDLALHVFQEM  177 (504)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~  177 (504)
                      +.|++..+.+ +.+...+..+...+.+.|++++|...|++.....+  .+...+..+..++...   |+.++|.+.+++.
T Consensus        78 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           78 VLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP--EEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9999988865 33477889999999999999999999999876532  2456778899999999   9999999999999


Q ss_pred             hhCC
Q 043204          178 DFQG  181 (504)
Q Consensus       178 ~~~~  181 (504)
                      .+.+
T Consensus       155 l~~~  158 (568)
T 2vsy_A          155 VAQG  158 (568)
T ss_dssp             HHHT
T ss_pred             HhcC
Confidence            8764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.00  E-value=9.8e-07  Score=82.67  Aligned_cols=366  Identities=8%  Similarity=-0.038  Sum_probs=200.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCC-hhHHHHHHHHhhcC-CC-CccHHHHHHHHHH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR-ITEMKEVIDQMKGD-SC-ECKDSVFATAIRT   89 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~l~~~   89 (504)
                      ..+..+-. |+++.+..+|++.....    |+...|...+....+.++ .+....+|+..... |. +.+...|...+..
T Consensus        20 r~l~~~P~-~~~e~~~~iferal~~~----ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f   94 (493)
T 2uy1_A           20 HARRLYMS-KDYRSLESLFGRCLKKS----YNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEE   94 (493)
T ss_dssp             HHHHHHHT-TCHHHHHHHHHHHSTTC----CCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHH
T ss_pred             HHHHHCCC-CCHHHHHHHHHHHhccC----CCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHH
Confidence            33444433 89999999999999864    488899999988777663 45677788877653 32 3466778888776


Q ss_pred             HH----hcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcC
Q 043204           90 YA----RAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCR  165 (504)
Q Consensus        90 ~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  165 (504)
                      +.    ..++.+.+.++|+.........-...|......-.. .+...+..++.+..                      +
T Consensus        95 ~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~-~~~~~~~~~~~~~~----------------------~  151 (493)
T 2uy1_A           95 EGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELE-LNKITGKKIVGDTL----------------------P  151 (493)
T ss_dssp             TSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHH-HCHHHHHHHHHHHH----------------------H
T ss_pred             HHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHH-hccccHHHHHHHHh----------------------H
Confidence            54    346788999999999874222212222222221111 11111222211110                      1


Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc--C-----CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCND--R-----RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ  238 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  238 (504)
                      .+..|..+++.+...-...+...|...+..-...  +     ..+.+..+|+++    .... +.+...|...+..+.+.
T Consensus       152 ~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~a----l~~~-p~~~~lW~~ya~~~~~~  226 (493)
T 2uy1_A          152 IFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYI----LDSF-YYAEEVYFFYSEYLIGI  226 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHH----HHHT-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHH----HHcC-CCCHHHHHHHHHHHHHc
Confidence            1222222222222100000122333322211110  0     023344555555    2221 22355555555656666


Q ss_pred             CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC------------CCCChhhHHHHHHHH
Q 043204          239 GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG------------GIPSLASYSAMAIDL  306 (504)
Q Consensus       239 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~------------~~~~~~~~~~ll~~~  306 (504)
                      |+.+.|..++++....   |.+.......... ...   +..   ++.+.+.-            .......|...+...
T Consensus       227 ~~~~~ar~i~erAi~~---P~~~~l~~~y~~~-~e~---~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~  296 (493)
T 2uy1_A          227 GQKEKAKKVVERGIEM---SDGMFLSLYYGLV-MDE---EAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYV  296 (493)
T ss_dssp             TCHHHHHHHHHHHHHH---CCSSHHHHHHHHH-TTC---THH---HHHHHHHTC----------CHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhC---CCcHHHHHHHHhh-cch---hHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHH
Confidence            6666666666666665   3332222111111 000   111   11111110            001124556666666


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc-CCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH
Q 043204          307 YNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK-DGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV  385 (504)
Q Consensus       307 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (504)
                      .+.++.+.|..+|+.. .. ...+...|......-.. .++.+.|..+|+.++...+-.  ...+...++...+.|+.+.
T Consensus       297 ~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~--~~~~~~yid~e~~~~~~~~  372 (493)
T 2uy1_A          297 LKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDS--TLLKEEFFLFLLRIGDEEN  372 (493)
T ss_dssp             HHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCC--HHHHHHHHHHHHHcCCHHH
Confidence            6678899999999999 32 12233344322222222 336999999999977765433  3456667777788999999


Q ss_pred             HHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          386 AVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       386 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      |..+|+.+.      .....|...+..-...|+.+.+.+++++..+
T Consensus       373 aR~l~er~~------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          373 ARALFKRLE------KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHSC------CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999973      2567788888877888999999999998875

>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=99.00  E-value=8.2e-09  Score=90.92  Aligned_cols=205  Identities=9%  Similarity=0.003  Sum_probs=138.7

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEA   99 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (504)
                      ..|++++|.++++++.+..++   .         .+...+++++|...|+..               ...|...|++++|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~---~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A   55 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT---S---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQA   55 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC---C---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc---c---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHH
Confidence            357788999999998876432   1         011146677777776654               4566777888888


Q ss_pred             HHHHHHhhhC----CCC-ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC---CCCc-chHHHHHHHHHHHhhcCCHHHH
Q 043204          100 VSLFKNLSQF----NCV-NWTQSFNTLLKEMVKESKLEAAHILFLRSCYG---WEVK-SRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus       100 ~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~-~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      ...|.+..+.    +.. .-..+|+.+...|...|++++|+..|++....   .+.. ....+++.+...|.. |++++|
T Consensus        56 ~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           56 KDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            8888766532    111 11346777778888888888888888776432   1111 124567778888888 999999


Q ss_pred             HHHHHHhhhCCCC---C--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCH-HHHHHHHHHHHhcCchhHH
Q 043204          171 LHVFQEMDFQGCY---P--DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDI-VIYRTLLFALCDQGKIQDA  244 (504)
Q Consensus       171 ~~~~~~~~~~~~~---p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a  244 (504)
                      +..|++..+....   +  ...++..+...+.+.|++++|...|++........+..+.. ..+..+..++...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            9988877653110   0  13567778888899999999999999886544444332222 3566677778888999999


Q ss_pred             HHHHHHHH
Q 043204          245 MQILEKIL  252 (504)
Q Consensus       245 ~~~~~~~~  252 (504)
                      ...|++..
T Consensus       215 ~~~~~~al  222 (307)
T 2ifu_A          215 QKCVRESY  222 (307)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99999887

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.97  E-value=9.9e-08  Score=79.71  Aligned_cols=189  Identities=7%  Similarity=-0.057  Sum_probs=113.7

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC--ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccH--HHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCE--CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWT--QSFN  119 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  119 (504)
                      +...+..+...+.+.|++++|...|+.+.+....  .....+..+..++.+.|++++|+..|+.+.+..+....  .++.
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            4455666777888889999999999998875411  12356777888889999999999999988775533221  2344


Q ss_pred             HHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHh-h----------
Q 043204          120 TLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRE-S----------  188 (504)
Q Consensus       120 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~----------  188 (504)
                      .+...+...+..     .+             ..|..+...+...|++++|...|+++.+..  |+.. .          
T Consensus        83 ~~g~~~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~  142 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL-------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFL  142 (225)
T ss_dssp             HHHHHHHHHHC--------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhh-----hh-------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHH
Confidence            444444432100     00             001111122223344444444444444431  2211 1          


Q ss_pred             -------HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC-c-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCC
Q 043204          189 -------YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG-E-DIVIYRTLLFALCDQGKIQDAMQILEKILRKGL  256 (504)
Q Consensus       189 -------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  256 (504)
                             ...+...+.+.|++++|...|+++.    +.... | ....+..+..+|.+.|+.++|.+.++.+...+.
T Consensus       143 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l----~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          143 KDRLAKYEYSVAEYYTERGAWVAVVNRVEGML----RDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH----HHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH----HHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                   1234566788899999999998883    33221 1 135677788899999999999999988877643

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.97  E-value=5e-08  Score=82.29  Aligned_cols=186  Identities=8%  Similarity=-0.159  Sum_probs=132.9

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCCcchhcHHHH-------HHHHhccCChhHHHHHHHHhhcC------------CC----
Q 043204           20 KQKSPLTALKIFKEAKEKYPNYRHNGPVYASM-------IGILSESNRITEMKEVIDQMKGD------------SC----   76 (504)
Q Consensus        20 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~------------~~----   76 (504)
                      ..+++++|.+.|.++.+.+|+   ....|..+       ...+.+.++..++...+..-...            |+    
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~---~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES---ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh---hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccc
Confidence            578999999999999999998   88899888       57777777777777777766552            21    


Q ss_pred             C----ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch--
Q 043204           77 E----CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR--  150 (504)
Q Consensus        77 ~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  150 (504)
                      .    -.......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+......  .|.  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--d~~~~  170 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP--DKFLA  170 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS--CHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC--CcccH
Confidence            0    112334556777888899999999998887655  322255566667888888888888887654321  221  


Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD--RESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                      ...+..+..++...|++++|++.|++.......|.  .........++.+.|+.++|...|+++
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            23566677788888888888888888875432243  234555666777888888888888887

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.96  E-value=4.9e-08  Score=85.95  Aligned_cols=209  Identities=11%  Similarity=0.006  Sum_probs=122.0

Q ss_pred             cchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043204          128 ESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATH  207 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  207 (504)
                      .|++++|..++++......  ..         .+...++++.|...|...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~--~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK--TS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--CC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc--cc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            5677778777776654211  10         011147777777777664               345667788888888


Q ss_pred             HHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHH
Q 043204          208 LLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINE  286 (504)
Q Consensus       208 ~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  286 (504)
                      .|.+........+..+. ..+|+.+..+|...|++++|+..|++.++....                .|+...       
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~----------------~g~~~~-------  114 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVE----------------NGTPDT-------  114 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHT----------------TTCHHH-------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH----------------cCCHHH-------
Confidence            88877544333332211 346777888888888888888888887653111                111111       


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC----c-chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC
Q 043204          287 ALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFW----P-SLVMYEAKLAALFKDGMVDEALEVIEEEMVKG  361 (504)
Q Consensus       287 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  361 (504)
                              ...++..+...|.. |++++|+..|++..+....    + ...++..+...|...|++++|+..|++++...
T Consensus       115 --------~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  185 (307)
T 2ifu_A          115 --------AAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMY  185 (307)
T ss_dssp             --------HHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence                    12344455555555 7777777777666542100    0 13456666677777777777777777644321


Q ss_pred             ---CCCcc-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 043204          362 ---TFVPT-VRVYNILLKGLCDAGNSAVAVMYLKKMS  394 (504)
Q Consensus       362 ---~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  394 (504)
                         +..+. ...+..+..++...|++++|...|++..
T Consensus       186 ~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          186 KEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence               11111 1244555556666677777777777765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.93  E-value=6.7e-09  Score=80.41  Aligned_cols=145  Identities=10%  Similarity=-0.036  Sum_probs=93.0

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK  130 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  130 (504)
                      |...+...|++++|++.++...... +.+...+..+...|.+.|++++|++.|++..+.++ .+..+|..+...|.+.|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCc
Confidence            4455666778888888888777653 33444566777888888888888888888777652 346677777777777788


Q ss_pred             HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH-HHHhhhCCCCCCHhhHHHHHHHHHhcC
Q 043204          131 LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV-FQEMDFQGCYPDRESYHILMKGLCNDR  200 (504)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~p~~~~~~~l~~~~~~~~  200 (504)
                      +++|...|++.....+  -+..+|..+...|.+.|+.++|.+. +++..+.. +-++.+|......+...|
T Consensus        81 ~~~A~~~~~~al~~~p--~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVELNP--TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            8888777777765422  2345667777777777777665544 46655542 124455555555544444

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.90  E-value=6.6e-07  Score=78.12  Aligned_cols=171  Identities=10%  Similarity=-0.084  Sum_probs=127.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhhCCC-CccH----HHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch----HHH
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQFNC-VNWT----QSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR----IQS  153 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  153 (504)
                      +...+..+...|++++|.+.++...+... .|+.    ..+..+...+...+++++|...|++........++    ..+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            44457788899999999999999876432 2321    13335666777778999999999998763222222    346


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHhhh----C-CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HH
Q 043204          154 LNLLMDVLCQCRRSDLALHVFQEMDF----Q-GCYPD-RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IV  226 (504)
Q Consensus       154 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  226 (504)
                      ++.+..+|...|++++|...|++..+    . +..+. ..++..+...|.+.|++++|...+++........+..+. ..
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            88999999999999999999998874    1 11122 236788888999999999999999988665555544444 67


Q ss_pred             HHHHHHHHHHhcCc-hhHHHHHHHHHHH
Q 043204          227 IYRTLLFALCDQGK-IQDAMQILEKILR  253 (504)
Q Consensus       227 ~~~~l~~~~~~~g~-~~~a~~~~~~~~~  253 (504)
                      +|..+..+|.+.|+ +++|.+.+++...
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            88889999999995 6999999988765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.88  E-value=4.8e-07  Score=79.01  Aligned_cols=170  Identities=11%  Similarity=-0.026  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhhCCCCcc-----HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCC--Ccc--hHH
Q 043204           82 VFATAIRTYARAGQLNEAVSLFKNLSQFNCVNW-----TQSFNTLLKEMVKESKLEAAHILFLRSCYGWE--VKS--RIQ  152 (504)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~--~~~  152 (504)
                      .+...+..+...|++++|.+.+....+......     ...+..+...+...|++++|...+++......  ..+  ...
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344455555566666666666655444322111     11223344445555566666666655542111  111  133


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhC-CCCCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-H
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQ-GCYPD-----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-I  225 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~  225 (504)
                      +++.+...|...|++++|...|++..+. ...|+     ..++..+...|...|++++|...+++........+.... .
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            5566666666666666666666655411 00111     135555566666666666666666665433222222211 4


Q ss_pred             HHHHHHHHHHHhcCchhHH-HHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDA-MQILEKI  251 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a-~~~~~~~  251 (504)
                      .+|..+..+|.+.|++++| ...+++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            5566666666666666666 5545544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.87  E-value=4.6e-06  Score=72.15  Aligned_cols=220  Identities=13%  Similarity=0.053  Sum_probs=132.7

Q ss_pred             CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHH----Hhc
Q 043204          165 RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDR--RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFAL----CDQ  238 (504)
Q Consensus       165 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  238 (504)
                      ...++|+++++.+...+.. +...|+.--..+...+  ++++++++++.+    .....+ +..+|+.--..+    ...
T Consensus        47 e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~----L~~nPk-~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           47 EYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEI----ALDNEK-NYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHH----HHHCTT-CCHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHH----HHHCcc-cHHHHHHHHHHHHHHHHhc
Confidence            3346788888877765322 3445666666666666  788888888777    343332 344444433333    333


Q ss_pred             ---CchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh--
Q 043204          239 ---GKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIV--  313 (504)
Q Consensus       239 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--  313 (504)
                         +++++++++++.+.+...                                    . +...|+.-.-.+.+.|.++  
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~p------------------------------------k-ny~aW~~R~~vl~~l~~~~~~  163 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDP------------------------------------K-NHHVWSYRKWLVDTFDLHNDA  163 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCT------------------------------------T-CHHHHHHHHHHHHHTTCTTCH
T ss_pred             cccCCHHHHHHHHHHHHHhCC------------------------------------C-CHHHHHHHHHHHHHhcccChH
Confidence               456666666666665432                                    2 6677777766667777777  


Q ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC------HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH-H
Q 043204          314 EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM------VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV-A  386 (504)
Q Consensus       314 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a  386 (504)
                      ++++.++++.+..+. |-..|+.-...+.+.+.      ++++++.+++++...  +-|...|+.+-..+.+.|+... +
T Consensus       164 ~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~  240 (306)
T 3dra_A          164 KELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQL  240 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGG
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHH
Confidence            888888888887654 66667665555555555      677777777655554  4456666666666666665433 4


Q ss_pred             HHHHHHHHHhcC--CCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          387 VMYLKKMSKQVG--CVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       387 ~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      ..+..++... +  -..+...+..+.++|.+.|+.++|.++++.+.+
T Consensus       241 ~~~~~~~~~~-~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          241 EEFSLQFVDL-EKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHTTEEG-GGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc-cCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            4455544432 1  122445566666666666666666666666654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.86  E-value=3.8e-08  Score=73.44  Aligned_cols=95  Identities=13%  Similarity=0.089  Sum_probs=53.0

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYA   91 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (504)
                      ......|.+.|++++|++.|+++.+..|.   +..+|..+..++.+.|++++|++.|++..+.+ +.+...|..+..++.
T Consensus        17 ~~~G~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           17 KNKGNEYFKKGDYPTAMRHYNEAVKRDPE---NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            33445555555566666666555555554   55555555555555555555555555555544 444455555555555


Q ss_pred             hcCChhHHHHHHHHhhhCC
Q 043204           92 RAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~  110 (504)
                      ..|++++|++.|+...+.+
T Consensus        93 ~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HCCCHHHHHHHHHHHHHHC
Confidence            5555555555555555443

>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=98.85  E-value=1.4e-06  Score=76.03  Aligned_cols=176  Identities=9%  Similarity=0.006  Sum_probs=127.5

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHH----HHHHHHHHHhhcCCHHHHHHHHHHhhhCCCC-CC----Hh
Q 043204          117 SFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQ----SLNLLMDVLCQCRRSDLALHVFQEMDFQGCY-PD----RE  187 (504)
Q Consensus       117 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~  187 (504)
                      .+...+..+...|++++|...+++........|+..    .+..+...+...+++++|...|++..+.... ++    ..
T Consensus        77 ~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~  156 (293)
T 3u3w_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHH
Confidence            334457788899999999999999887655555532    3445777788888999999999999874222 23    23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhC-CCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhh
Q 043204          188 SYHILMKGLCNDRRLNEATHLLYSMFWRISQK-GSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHR  265 (504)
Q Consensus       188 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  265 (504)
                      +++.+...|...|++++|...|+++....... +..+. ..++..+..+|.+.|++++|.+.+++.++.....       
T Consensus       157 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~-------  229 (293)
T 3u3w_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI-------  229 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc-------
Confidence            68889999999999999999999996544443 22222 3478889999999999999999999887632110       


Q ss_pred             hhccccCCCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCC-hhHHHHHHHHHHH
Q 043204          266 IDLCPCNDGEDIEGAKSLINEALIRGGIP-SLASYSAMAIDLYNEGR-IVEGDKVLDEMRT  324 (504)
Q Consensus       266 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~  324 (504)
                                               +..+ -...+..+..++.+.|+ +++|...+++...
T Consensus       230 -------------------------~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          230 -------------------------NSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             -------------------------TBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             -------------------------CcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence                                     0001 14566777777777884 5888888877654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.83  E-value=7.3e-08  Score=79.06  Aligned_cols=120  Identities=9%  Similarity=0.008  Sum_probs=61.9

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhc----CCC-CccHHHHHHHHHHHHhc
Q 043204           19 KKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKG----DSC-ECKDSVFATAIRTYARA   93 (504)
Q Consensus        19 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~   93 (504)
                      ...|++++|.+.++..... |  .....++..+...+...|++++|...+++..+    .+. +....++..+...+...
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~   79 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-P--ATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMA   79 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-T--TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             cccccHHHHHHHHHHhcCC-h--HHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHc
Confidence            3456777777755444332 2  12455666666677777777777777766554    111 11223456666666666


Q ss_pred             CChhHHHHHHHHhhhC----CCC--ccHHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204           94 GQLNEAVSLFKNLSQF----NCV--NWTQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~----~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      |++++|...+++..+.    +..  ....++..+...+...|++++|...+++.
T Consensus        80 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  133 (203)
T 3gw4_A           80 GNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKS  133 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            6666666666654432    101  11233444555555555555555555444

>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=98.83  E-value=1.1e-07  Score=75.04  Aligned_cols=126  Identities=12%  Similarity=-0.014  Sum_probs=86.0

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+...|++++|+..|+++.+..|.   +..++..+..++...|++++|.+.+++..+.. +.+...+..+..++
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELNPS---NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            445566677778888888888888777665   66777777777777888888888887777665 55566777777777


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHH--HHHHHHHHhcchHHHHHHHHHHh
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSF--NTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      ...|++++|...|++..+.... +...+  ...+..+.+.|++++|...+...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            7778888888887777665432 22233  23333355667777776666554

>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=98.83  E-value=1.8e-06  Score=75.46  Aligned_cols=228  Identities=10%  Similarity=-0.010  Sum_probs=168.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC-ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN-RITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      .....+.+..++|+++++.++..+|.   +..+|+.--.++...| .+++++++++.+.... +-+..+|+.-..++.+.
T Consensus        61 r~~~~~~e~se~AL~lt~~~L~~nP~---~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l  136 (349)
T 3q7a_A           61 RAIAAKEEKSERALELTEIIVRMNPA---HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRI  136 (349)
T ss_dssp             HHHHHTTCCSHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHhCch---hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHh
Confidence            33444555667999999999999888   8888998888888888 5999999999999887 67778899888888877


Q ss_pred             -C-ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHH--------HHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           94 -G-QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLE--------AAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        94 -~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                       + ++++++++++.+.+.+.. +..+|+.-.-.+.+.+.++        ++++.++++....  +-|...|+.....+.+
T Consensus       137 ~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          137 SPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVS  213 (349)
T ss_dssp             CCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTT
T ss_pred             cCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHh
Confidence             7 899999999999987744 4667776666666666666        8889988887653  3366778887777777


Q ss_pred             cCC-------HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHHH
Q 043204          164 CRR-------SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL--------------------NEATHLLYSMFWRI  216 (504)
Q Consensus       164 ~~~-------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~  216 (504)
                      .+.       ++++++.+++...... -|...|+.+-..+.+.|..                    ....+....+    
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----  288 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPM----  288 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCC----
T ss_pred             ccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHH----
Confidence            776       6889999988887653 3777787776666665543                    2222222222    


Q ss_pred             hhCC-----CCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          217 SQKG-----SGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       217 ~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      ...+     ..++......++..|...|+.++|.++++.+.+.
T Consensus       289 ~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          289 PSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            2211     1356778888889999989999999999888653

>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=98.83  E-value=1.6e-07  Score=90.57  Aligned_cols=153  Identities=10%  Similarity=-0.034  Sum_probs=97.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHH
Q 043204          275 EDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVI  354 (504)
Q Consensus       275 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  354 (504)
                      |++++|...++++.+.... +...+..+...+...|++++|...+++..+.... +...+..+...|...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             ------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444555555544443222 4566777777777778888888888887776432 5667777777888888888888888


Q ss_pred             HHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhc---CcHHHHHHHHHHHHh
Q 043204          355 EEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRD---GRFLEASRVLEEMLI  431 (504)
Q Consensus       355 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~  431 (504)
                      ++++...  +.+...+..+..+|...|++++|.+.+++..+.  .+.+...+..+..++...   |+.++|.+.+++..+
T Consensus        81 ~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           81 QQASDAA--PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            8766553  335667777777888888888888888887764  123456677777777777   888888888888777


Q ss_pred             cC
Q 043204          432 RS  433 (504)
Q Consensus       432 ~~  433 (504)
                      .+
T Consensus       157 ~~  158 (568)
T 2vsy_A          157 QG  158 (568)
T ss_dssp             HT
T ss_pred             cC
Confidence            54

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.82  E-value=5e-08  Score=73.68  Aligned_cols=97  Identities=7%  Similarity=0.064  Sum_probs=60.6

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+..|+++.+..|.   +..++..+..++...|++++|.+.+++..+.. +.+...+..+..+
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNPK---DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT---CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3445556666666666666666666666554   55666666666666666666666666666554 4455556666666


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|.+.|++..+..
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhHHHHHHHHHHHHHhC
Confidence            666666666666666655543

>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=98.81  E-value=2.3e-08  Score=77.14  Aligned_cols=110  Identities=9%  Similarity=-0.049  Sum_probs=71.9

Q ss_pred             HHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           30 IFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        30 ~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      .|+++....|+   +...+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|+..|+...+.
T Consensus         9 ~~~~al~~~p~---~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A            9 TIAMLNEISSD---TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             SHHHHTTCCHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHcCCHh---hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            45555555443   55566666677777777777777777776665 556666777777777777777777777776665


Q ss_pred             CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204          110 NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus       110 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      ++ .+...+..+..++...|++++|...|++....
T Consensus        85 ~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           85 DI-XEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             ST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CC-CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            42 23455666666777777777777777666543

>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=98.79  E-value=5e-07  Score=74.66  Aligned_cols=129  Identities=6%  Similarity=-0.076  Sum_probs=88.4

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK  127 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (504)
                      +..+...+...|++++|.+.|++..    .|+..++..+...+...|++++|+..|+...+.+ +.+...+..+...+..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            4455666667777777777777663    4466677777777777777777777777766654 2345666777777777


Q ss_pred             cchHHHHHHHHHHhhcCCCCc-------------c-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC
Q 043204          128 ESKLEAAHILFLRSCYGWEVK-------------S-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQG  181 (504)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~-------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  181 (504)
                      .|++++|...|++.....+..             | ....+..+..+|...|++++|.+.|++..+..
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            777777777777766532211             1 23567778888888888888888888887753

>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=98.78  E-value=4e-08  Score=78.63  Aligned_cols=122  Identities=13%  Similarity=0.114  Sum_probs=90.3

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH-HHhcCCh
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT-YARAGQL   96 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~   96 (504)
                      +...|++++|+..|+...+..|.   +...|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQ---NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCS---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHhCCC---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCc
Confidence            34577888888888888888776   77788888888888888888888888888765 5566677777777 7778887


Q ss_pred             --hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           97 --NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        97 --~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                        ++|...|+...+.+. .+...+..+...+...|++++|...|++....
T Consensus        96 ~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           96 MTAQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence              888888888777653 33566677777777888888888888777654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.77  E-value=1.8e-07  Score=69.63  Aligned_cols=97  Identities=15%  Similarity=0.173  Sum_probs=57.6

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+..|+++.+..|.   +..++..+...+...|++++|..+++++.+.. +.+..++..+...
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPN---NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC---cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            3444555566666666666666666665443   45556666666666666666666666665544 3445555566666


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|...|+.+.+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            666666666666666655443

>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=5.2e-08  Score=74.95  Aligned_cols=99  Identities=11%  Similarity=-0.109  Sum_probs=70.7

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..+...+.+.|++++|...|++..... |.+...|..+..+|...|++++|+..|++..+.++ .+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHH
Confidence            55566777777777777777777777777765 55666777777777777777777777777776553 23556677777


Q ss_pred             HHHhcchHHHHHHHHHHhhcC
Q 043204          124 EMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      +|...|++++|...|++....
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777777654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.76  E-value=2.8e-07  Score=75.46  Aligned_cols=102  Identities=14%  Similarity=-0.054  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhC----CCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQ----GCYP--DRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-  224 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-  224 (504)
                      .++..+...+...|++++|.+.+++..+.    +-.|  ....+..+...+...|++++|...+++........+.... 
T Consensus        67 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  146 (203)
T 3gw4_A           67 RALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAI  146 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHH
Confidence            34555555566666666666666554432    1011  1233555556666667777776666666433222222111 


Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          225 IVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       225 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      ..++..+..++...|++++|.+.+++..+
T Consensus       147 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          147 ACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            23345666667777777777777766654

>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=1.6e-08  Score=77.87  Aligned_cols=123  Identities=9%  Similarity=0.043  Sum_probs=86.8

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      ....+.+.+...+.+.       ++.+.. |.+...+..+...+.+.|++++|+..|+...+.+ +.+...|..+..++.
T Consensus        11 ~~~~l~~~~~~~~~l~-------~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~   81 (151)
T 3gyz_A           11 ISTAVIDAINSGATLK-------DINAIP-DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQ   81 (151)
T ss_dssp             HHHHHHHHHHTSCCTG-------GGCCSC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHH-------HHhCCC-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3455555555444443       333333 4445567777788888888888888888887765 334667788888888


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      ..|++++|+..|++.....+.  +...|..+..+|...|++++|...|++..+.
T Consensus        82 ~~g~~~~Ai~~~~~al~l~P~--~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           82 IKEQFQQAADLYAVAFALGKN--DYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHSSS--CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCC--CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888887765332  3456777888888888888888888888775

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.76  E-value=1.8e-06  Score=75.39  Aligned_cols=174  Identities=9%  Similarity=-0.010  Sum_probs=113.9

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch----HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC---CCC--H
Q 043204          116 QSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR----IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC---YPD--R  186 (504)
Q Consensus       116 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~p~--~  186 (504)
                      ..+...+..+...|++++|...+++........++    ...+..+...+...|++++|...+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            34455667777888888888888776654332222    12344566667777888888888887765321   111  3


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc--CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcC----CCCCc
Q 043204          187 ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE--DIVIYRTLLFALCDQGKIQDAMQILEKILRKG----LKAPK  260 (504)
Q Consensus       187 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~~  260 (504)
                      .+|+.+...|...|++++|...|++........+..+  ...++..+..+|...|++++|...+++..+..    .....
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            4677788888888888888888888754433333222  22578888888888888888888888765432    12222


Q ss_pred             chhhhhhccccCCCCChHHH-HHHHHHHHH
Q 043204          261 SRRHRIDLCPCNDGEDIEGA-KSLINEALI  289 (504)
Q Consensus       261 ~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~  289 (504)
                      ...+..+..++...|+++.| ...++....
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            44555667777888888888 666766653

>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=98.75  E-value=8e-07  Score=73.41  Aligned_cols=129  Identities=9%  Similarity=-0.092  Sum_probs=77.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGL  377 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (504)
                      .+..+...+...|++++|...|++..    .|+...+..+...|...|++++|...|++++...  +.+...+..+..+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHH
Confidence            34444555566677777776666553    3456666666666677777777777776655443  33455666666666


Q ss_pred             HhcCChHHHHHHHHHHHHhcCCCC--------------chhhHHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 043204          378 CDAGNSAVAVMYLKKMSKQVGCVA--------------NGETYGILVDGLCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       378 ~~~~~~~~a~~~~~~~~~~~~~~p--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  432 (504)
                      ...|++++|.+.|++..+...-.+              ....+..+..+|.+.|++++|.+.|++..+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            667777777777766665311111              1145555666666666666666666666654

>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=98.75  E-value=2e-07  Score=73.45  Aligned_cols=94  Identities=7%  Similarity=-0.002  Sum_probs=47.7

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .+..+...+...|++++|...|+...+.. +.+..++..+..++...|++++|...|+...+... .+..++..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            34455555555566666666665555543 33445555555555555555555555555544331 22334444444444


Q ss_pred             hcchHHHHHHHHHHhh
Q 043204          127 KESKLEAAHILFLRSC  142 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~  142 (504)
                      ..|++++|...|++..
T Consensus        93 ~~~~~~~A~~~~~~a~  108 (166)
T 1a17_A           93 ALGKFRAALRDYETVV  108 (166)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHH
Confidence            4444444444444443

>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=98.75  E-value=3.3e-08  Score=85.64  Aligned_cols=97  Identities=6%  Similarity=-0.096  Sum_probs=73.8

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      ..+..+...+...|++++|+..|+++.+..|.   +...|..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPL---VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34555667777888888888888888887665   67777788888888888888888888887765 556667777778


Q ss_pred             HHHhcCChhHHHHHHHHhhhC
Q 043204           89 TYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      ++...|++++|...|+...+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888776653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.71  E-value=2.3e-07  Score=69.65  Aligned_cols=95  Identities=12%  Similarity=0.062  Sum_probs=52.1

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+...|++++|+..|+++.+..|.   +...+..+...+...|++++|.+.++...+.. +.+...+..+...+
T Consensus        15 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           15 LKTEGNEQMKVENFEAAVHFYGKAIELNPA---NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            334445555556666666666665555443   44555555555555566666666655555543 33444555555555


Q ss_pred             HhcCChhHHHHHHHHhhhC
Q 043204           91 ARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~  109 (504)
                      ...|++++|...|+...+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            5555555555555555444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.67  E-value=2e-07  Score=69.45  Aligned_cols=97  Identities=3%  Similarity=-0.015  Sum_probs=61.2

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...+......+.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++|+..|+...+.+. .+...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHH
Confidence            3455666666777777777777777766655 55566666666677777777777777766665542 234555566666


Q ss_pred             HHhcchHHHHHHHHHHhhc
Q 043204          125 MVKESKLEAAHILFLRSCY  143 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~  143 (504)
                      +...|++++|...|++..+
T Consensus        91 ~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            6666666666666665554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.66  E-value=3.9e-07  Score=66.18  Aligned_cols=101  Identities=12%  Similarity=0.010  Sum_probs=77.8

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCc--cHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCEC--KDSVFA   84 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~   84 (504)
                      +...+..+...+...|++++|+..|+++.+..|.   +...+..+..++...|++++|.+.|++..+.. +.  +...+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~   80 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE---ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWA   80 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC---CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHH
Confidence            3455667777888888888888888888887665   66777778888888888888888888887765 44  567777


Q ss_pred             HHHHHHHhc-CChhHHHHHHHHhhhCCC
Q 043204           85 TAIRTYARA-GQLNEAVSLFKNLSQFNC  111 (504)
Q Consensus        85 ~l~~~~~~~-~~~~~a~~~~~~~~~~~~  111 (504)
                      .+..++... |++++|.+.++...+...
T Consensus        81 ~l~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           81 AKADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            788888888 888888888888776553

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.65  E-value=1.9e-07  Score=69.01  Aligned_cols=97  Identities=12%  Similarity=0.024  Sum_probs=70.1

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+-.+...+.+.|++++|+..|+++.+..|+   +...|..+..++...|++++|+..|++..+.. +.+...+..+..+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~   94 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE---REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   94 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4445566777777888888888888777766   67777777777777788888888777777765 4556667777777


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|+..|+...+.+
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            777777777777777766543

>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=98.64  E-value=5.4e-07  Score=80.23  Aligned_cols=130  Identities=9%  Similarity=-0.059  Sum_probs=93.1

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc------------chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRH------------NGPVYASMIGILSESNRITEMKEVIDQMKGDSCE   77 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (504)
                      .+..+...+.+.|++++|+..|+++.+..|....            ...+|..+..++.+.|++++|+..+++..+.. +
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  227 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S  227 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            3556777888899999999999999988765100            04677777778888888888888888877765 5


Q ss_pred             ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHH-HHHHHHh
Q 043204           78 CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAA-HILFLRS  141 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a-~~~~~~~  141 (504)
                      .+...+..+..+|...|++++|+..|+...+... .+..++..+...+.+.|+.++| ...|+.+
T Consensus       228 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          228 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667777777788888888888888887776553 2355666777777777777766 3344444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.63  E-value=1.7e-07  Score=71.75  Aligned_cols=96  Identities=7%  Similarity=-0.042  Sum_probs=50.4

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE  124 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (504)
                      ...+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|+..|+...+.++ .+...+..+..+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHH
Confidence            3344445555555555555555555555544 34445555555555555555555555555554432 223444455555


Q ss_pred             HHhcchHHHHHHHHHHhh
Q 043204          125 MVKESKLEAAHILFLRSC  142 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~  142 (504)
                      +...|++++|...|++..
T Consensus        96 ~~~~g~~~~A~~~~~~al  113 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSAR  113 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.63  E-value=5.6e-07  Score=69.26  Aligned_cols=97  Identities=9%  Similarity=-0.105  Sum_probs=87.7

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+..|+++....|.   +...|..+..++...|++++|...|++..+.. +.+...+..+..+
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY---DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc---cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            4556778889999999999999999999887   88899999999999999999999999999887 6677889999999


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|...|+...+..
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            999999999999999987654

>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=98.62  E-value=5.4e-07  Score=67.24  Aligned_cols=97  Identities=8%  Similarity=0.043  Sum_probs=76.7

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+.+.|++++|+..|+++.+..|+   +...|..+..++.+.|++++|...+++..+.. +.+...|..+..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE---DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3455667778888888888888888888776   77788888888888888888888888888776 5566778888888


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|...|++..+.+
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            888888888888888776543

>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=98.62  E-value=1.2e-07  Score=84.45  Aligned_cols=150  Identities=14%  Similarity=0.024  Sum_probs=80.3

Q ss_pred             CChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCcc--------------HHHHHHHHHH
Q 043204           59 NRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNW--------------TQSFNTLLKE  124 (504)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~  124 (504)
                      +++++|.+.++...... +.+...+..+...+.+.|++++|+..|++..+......              ..+|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555444332 23445677777788888888888888887776543321              2455555555


Q ss_pred             HHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043204          125 MVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNE  204 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  204 (504)
                      +.+.|++++|+..|++.....  +.+...|..+..+|...|++++|...|++..+... -+...+..+..++.+.|+.++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555554331  12334445555555555555555555555554321 134444455555555555555


Q ss_pred             H-HHHHHHH
Q 043204          205 A-THLLYSM  212 (504)
Q Consensus       205 a-~~~~~~~  212 (504)
                      + ...|+.|
T Consensus       283 a~~~~~~~~  291 (336)
T 1p5q_A          283 REKKLYANM  291 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            4 2344444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.61  E-value=4.5e-06  Score=70.46  Aligned_cols=188  Identities=13%  Similarity=-0.023  Sum_probs=141.3

Q ss_pred             ccCChhHHHHHHHHhhcCCCCccHHHHHHH-------HHHHHhcCChhHHHHHHHHhhh------------CCC----C-
Q 043204           57 ESNRITEMKEVIDQMKGDSCECKDSVFATA-------IRTYARAGQLNEAVSLFKNLSQ------------FNC----V-  112 (504)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~------------~~~----~-  112 (504)
                      ..++...|.+.|.++.+.. +-....|..+       ...+.+.++..+++..+..-.+            .|.    . 
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            5799999999999999887 6677888877       5666666666666666665443            221    0 


Q ss_pred             ---ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCH---
Q 043204          113 ---NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDR---  186 (504)
Q Consensus       113 ---~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~---  186 (504)
                         ........+...+...|++++|.++|+.+....   |+......+...+.+.+++++|+..|+.....   |+.   
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~---p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~---~d~~~~  170 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG---SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW---PDKFLA  170 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT---CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC---SCHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc---CCcccH
Confidence               112344567788889999999999999887542   33336666777899999999999999866553   222   


Q ss_pred             -hhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC--HHHHHHHHHHHHhcCchhHHHHHHHHHHHcC
Q 043204          187 -ESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED--IVIYRTLLFALCDQGKIQDAMQILEKILRKG  255 (504)
Q Consensus       187 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  255 (504)
                       ..+..+-.++...|++++|+..|++.    ......|.  .........++.+.|+.++|...|+++....
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a----~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEA----NDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH----HTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH----hcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence             36777888899999999999999988    54333253  3466677888999999999999999999874

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.61  E-value=1.1e-06  Score=66.20  Aligned_cols=98  Identities=4%  Similarity=0.003  Sum_probs=64.0

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...|..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|.+.|+...+... .+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHH
Confidence            45566667777777777777777777777654 44566667777777777777777777776665432 23455566666


Q ss_pred             HHHhcchHHHHHHHHHHhhc
Q 043204          124 EMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~  143 (504)
                      .+...|++++|...|++...
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            66666666666666666554

>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=98.60  E-value=6.2e-07  Score=65.81  Aligned_cols=97  Identities=10%  Similarity=0.001  Sum_probs=68.7

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+..+...+...|++++|+..|+++....|.   +...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDPH---NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3455666777777777777777777777655   66667777777777777777777777777665 4456667777777


Q ss_pred             HHhcCChhHHHHHHHHhhhCC
Q 043204           90 YARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...|++++|.+.|+...+.+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhhHHHHHHHHHHHHHcC
Confidence            777777777777777766654

>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=98.60  E-value=3.5e-07  Score=79.16  Aligned_cols=194  Identities=8%  Similarity=-0.021  Sum_probs=131.9

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..++.+.|++++|+..++...+.+. .+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            56778888999999999999999999999876 56788899999999999999999999999988763 45678889999


Q ss_pred             HHHhcchHHHHHHHHHHhhcCCCCcchH-HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043204          124 EMVKESKLEAAHILFLRSCYGWEVKSRI-QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      ++...|++++|...|++.....   |+. ..+...+....+..   ++.. +..........+......+ ..+ ..|++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~---p~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~i~~~l-~~l-~~~~~  151 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA---KEQRLNFGDDIPSALRIA---KKKR-WNSIEERRIHQESELHSYL-TRL-IAAER  151 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH---HHTTCCCCSHHHHHHHHH---HHHH-HHHHHHTCCCCCCHHHHHH-HHH-HHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC---ccchhhHHHHHHHHHHHH---HHHH-HHHHHHHHHhhhHHHHHHH-HHH-HHHHH
Confidence            9999999999999999876432   211 11111222221111   1111 1222222333444443333 322 36888


Q ss_pred             HHHHHHHHHHHHHHhhCCCCcCH-HHHHHHHHHHHhc-CchhHHHHHHHHHHHc
Q 043204          203 NEATHLLYSMFWRISQKGSGEDI-VIYRTLLFALCDQ-GKIQDAMQILEKILRK  254 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  254 (504)
                      ++|.+.++..    .+  ..|+. .....+...+.+. +.+++|.++|.++.+.
T Consensus       152 ~~A~~~~~~a----l~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          152 ERELEECQRN----HE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHTTTSGG----GT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHhh----hc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9998888765    33  34443 3334444445554 5688899999887653

>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=98.59  E-value=9.5e-05  Score=64.69  Aligned_cols=176  Identities=10%  Similarity=-0.005  Sum_probs=106.0

Q ss_pred             hhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc-C
Q 043204          162 CQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDR-RLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ-G  239 (504)
Q Consensus       162 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g  239 (504)
                      .+.+..++|+++++.+...+.. +...|+.--..+...| .+++++.+++.+    .....+ +..+|+.-..++... +
T Consensus        65 ~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~----L~~nPK-ny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEF----AVQNLK-SYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHH----HHTTCC-CHHHHHHHHHHHHHHCC
T ss_pred             HhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHH----HHhCCC-cHHHHHHHHHHHHHhcC
Confidence            3344456778888877765422 4445565555555666 478888888777    444333 566666665555554 5


Q ss_pred             -chhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh-----
Q 043204          240 -KIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIV-----  313 (504)
Q Consensus       240 -~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-----  313 (504)
                       ++++++++++.+.+....                                     +...|+.-.-.+.+.+.++     
T Consensus       139 ~~~~~EL~~~~k~L~~dpk-------------------------------------Ny~AW~~R~wvl~~l~~~~~~~~~  181 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPK-------------------------------------NYHTWAYLHWLYSHFSTLGRISEA  181 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTT-------------------------------------CHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             CChHHHHHHHHHHHHhCCC-------------------------------------CHHHHHHHHHHHHHhccccccchh
Confidence             667777777777654321                                     4445554444444444444     


Q ss_pred             ---HHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC-------HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204          314 ---EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM-------VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNS  383 (504)
Q Consensus       314 ---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (504)
                         ++++.++++.+..+. |...|+.....+.+.+.       ++++++.+++++...  +-|...|+.+-..+.+.|+.
T Consensus       182 ~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          182 QWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCC
T ss_pred             hHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCC
Confidence               777777777776544 66677766666666665       577777777756554  34555666555555555543

>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=98.59  E-value=3.7e-07  Score=72.91  Aligned_cols=123  Identities=9%  Similarity=0.055  Sum_probs=94.4

Q ss_pred             HhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH-HHhcchH--
Q 043204           55 LSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE-MVKESKL--  131 (504)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~--  131 (504)
                      +...|++++|...++...+.. +.+...+..+...|...|++++|...|+...+.+. .+...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcch
Confidence            456788899999998888776 66778889999999999999999999998887653 345677777777 7788888  


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCC
Q 043204          132 EAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQG  181 (504)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  181 (504)
                      ++|...|++.....+  .+...+..+...|...|++++|...|++..+..
T Consensus        98 ~~A~~~~~~al~~~p--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDS--NEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            999999988876532  245667788888889999999999999888763

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.58  E-value=6e-07  Score=68.64  Aligned_cols=96  Identities=11%  Similarity=-0.097  Sum_probs=86.8

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+.+.|++++|+..|+++....|.   +...|..+..++...|++++|...|++..+.. +.+...+..+..++
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLDHY---DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            445677888999999999999999999887   88899999999999999999999999999887 67778899999999


Q ss_pred             HhcCChhHHHHHHHHhhhCC
Q 043204           91 ARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~  110 (504)
                      ...|++++|...|+...+..
T Consensus        97 ~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999887654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.57  E-value=1.4e-05  Score=74.15  Aligned_cols=207  Identities=9%  Similarity=-0.001  Sum_probs=145.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcc--------------hhcHHHHHHHHhccCChhHHHHHHHHhhcCCC-Ccc
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHN--------------GPVYASMIGILSESNRITEMKEVIDQMKGDSC-ECK   79 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~   79 (504)
                      .+.+.+.|++++|++.|..+.+..|.....              ..++..+...|...|++++|.+.+..+...-. .++
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            566788999999999999999886542111              01377888999999999999999988764210 122


Q ss_pred             HH----HHHHHHHHHHhcCChhHHHHHHHHhhh----C-CCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC---C-C
Q 043204           80 DS----VFATAIRTYARAGQLNEAVSLFKNLSQ----F-NCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG---W-E  146 (504)
Q Consensus        80 ~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~-~  146 (504)
                      ..    +.+.+-..+...|+++.|..++.....    . .......++..+...+...|++++|..+++++...   . +
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            21    233334444567889999999887653    2 22334567888999999999999999999876531   1 1


Q ss_pred             CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC--CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCC
Q 043204          147 VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ--GCYPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKG  220 (504)
Q Consensus       147 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  220 (504)
                      .+....++..++..|...|++++|..++++....  .+..+    ...+..+...+...+++++|...|.+.+......+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~~~~~~  250 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFESYHNLT  250 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHTT
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhh
Confidence            2223567888899999999999999999877542  11111    23455666677788999999999888865544444


Q ss_pred             C
Q 043204          221 S  221 (504)
Q Consensus       221 ~  221 (504)
                      .
T Consensus       251 ~  251 (434)
T 4b4t_Q          251 T  251 (434)
T ss_dssp             T
T ss_pred             h
Confidence            3

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.55  E-value=2.6e-06  Score=63.06  Aligned_cols=95  Identities=18%  Similarity=0.184  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHH
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGL  448 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  448 (504)
                      .+..+...+...|++++|.+.++++.+.  .+.+..++..+...+...|++++|..+++++.+.. +.+..++..+...+
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            3444444444455555555555544433  11233344444444555555555555555544432 22334444444555


Q ss_pred             HccCCHHHHHHHHHHHHH
Q 043204          449 CSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       449 ~~~g~~~~a~~~~~~~~~  466 (504)
                      ...|++++|.+.++++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.54  E-value=1.1e-06  Score=69.04  Aligned_cols=98  Identities=9%  Similarity=-0.025  Sum_probs=80.8

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIR   88 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (504)
                      ..+..+...+...|++++|+..|+++.+..|.   +...|..+..++...|++++|+..|++..+.. +.+...|..+..
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIAPA---NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc---CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34566777888888999999999998888776   77888888888888899999999988888876 566778888888


Q ss_pred             HHHhcCChhHHHHHHHHhhhCC
Q 043204           89 TYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      ++...|++++|...|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            8888889999988888877654

>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=98.54  E-value=1e-07  Score=77.90  Aligned_cols=124  Identities=11%  Similarity=-0.029  Sum_probs=53.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH-------------
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD-------------   80 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------   80 (504)
                      .+......|++++|.+.|+...+..+.   ....+..+...+...|++++|...|++..+.. +.+.             
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~   85 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQ---SAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKN   85 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHH---HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHH
Confidence            334444455555555555433332111   34445566666666777777777776666543 1111             


Q ss_pred             ---HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           81 ---SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        81 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                         .++..+..++...|++++|+..++...+.. +.+...+..+..++...|++++|...|++..
T Consensus        86 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           86 IEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               344444444555555555555555444432 1223344444444444444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.52  E-value=7.3e-06  Score=76.06  Aligned_cols=171  Identities=8%  Similarity=-0.061  Sum_probs=103.4

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchH----HHHHHHHHHHhhcCCHHHHHHHHHHhhh----CCCCCC-Hhh
Q 043204          118 FNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRI----QSLNLLMDVLCQCRRSDLALHVFQEMDF----QGCYPD-RES  188 (504)
Q Consensus       118 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~p~-~~~  188 (504)
                      +..+...|...|++++|...+..+....+..++.    .+.+.+-..+...|+.+.|.++++....    .+..+. ..+
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            4566666777777777777666654321111111    2233344445556788888888776643    222222 356


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcC--CCCC---cch
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKG--LKAP---KSR  262 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~---~~~  262 (504)
                      +..+...+...|++++|..++++........+..+. ..++..++..|...|++++|..++++.....  ...+   ...
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            777888888899999999998887654444333332 4577788888999999999999888876531  1111   112


Q ss_pred             hhhhhccccCCCCChHHHHHHHHHHH
Q 043204          263 RHRIDLCPCNDGEDIEGAKSLINEAL  288 (504)
Q Consensus       263 ~~~~~~~~~~~~~~~~~a~~~~~~~~  288 (504)
                      ....+...+...++++.|...|.+..
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            33334455566666666666555554

>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=98.52  E-value=8.1e-07  Score=67.39  Aligned_cols=99  Identities=6%  Similarity=-0.099  Sum_probs=74.8

Q ss_pred             CCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHH
Q 043204            7 RLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATA   86 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (504)
                      +...+..+...+...|++++|+..|+.+.+..|.   +...|..+..++...|++++|...++...+.. +.+...+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL---VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC---cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            3445566677777888888888888888877665   67777778888888888888888888877765 5566677777


Q ss_pred             HHHHHhcCChhHHHHHHHHhhhC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      ..++...|++++|+..|+...+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            88888888888888888776653

>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=98.52  E-value=3.6e-05  Score=67.00  Aligned_cols=186  Identities=8%  Similarity=-0.037  Sum_probs=122.2

Q ss_pred             HhcCChh-HHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCC----------hhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204           19 KKQKSPL-TALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR----------ITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus        19 ~~~~~~~-~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      .+.|.++ +|+.+++.+...+|.   +..+|+.--.++...++          +++++.+++.+.... +-+..+|+.-.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~---~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~  115 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD---FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRC  115 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT---CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch---hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3455554 788888888888776   66677666555544443          567888888888766 66777788777


Q ss_pred             HHHHhcC--ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch-HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           88 RTYARAG--QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK-LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        88 ~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      -++...+  ++++++.+++.+.+.++. +..+|+.-.-.+...|. +++++..++++....  +-|...|+.....+.+.
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQL  192 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHH
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHh
Confidence            7777777  478888888888877643 35666666666666776 577888887777653  33455565555544443


Q ss_pred             --------------CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc-----------CCHHHHHHHHHHH
Q 043204          165 --------------RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCND-----------RRLNEATHLLYSM  212 (504)
Q Consensus       165 --------------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~  212 (504)
                                    +.++++++.++......+ -|...|+-+-..+.+.           +.++++++.++++
T Consensus       193 ~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~el  264 (331)
T 3dss_A          193 HPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKEL  264 (331)
T ss_dssp             SCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHH
T ss_pred             hhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHH
Confidence                          346777777777766542 2566666554444433           3456677777666

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.52  E-value=2.5e-06  Score=63.85  Aligned_cols=92  Identities=17%  Similarity=0.135  Sum_probs=36.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc
Q 043204          371 NILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS  450 (504)
Q Consensus       371 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  450 (504)
                      ..+...+...|++++|...+++..+.  .+.+...+..+..++...|++++|.+.+++..+.. +.+...+..+...+..
T Consensus        16 ~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~   92 (131)
T 2vyi_A           16 KTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSS   92 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHH
Confidence            33333344444444444444444332  11123333334444444444444444444444321 1123333344444444


Q ss_pred             cCCHHHHHHHHHHHH
Q 043204          451 IGKQYEAVMWLEEMI  465 (504)
Q Consensus       451 ~g~~~~a~~~~~~~~  465 (504)
                      .|++++|.+.+++..
T Consensus        93 ~~~~~~A~~~~~~~~  107 (131)
T 2vyi_A           93 LNKHVEAVAYYKKAL  107 (131)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHH
Confidence            444444444444444

>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=98.49  E-value=4.7e-07  Score=67.56  Aligned_cols=96  Identities=18%  Similarity=0.156  Sum_probs=61.0

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCC--Ccc----HHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSC--ECK----DSVFA   84 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~   84 (504)
                      +..+...+.+.|++++|+..|+++.+..|.   +..+|..+..+|...|++++|++.+++..+...  .++    ..+|.
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~---~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPS---NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            445666677777777777777777777665   666777777777777777777777776664320  000    12455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      .+..++...|++++|++.|+...+.
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5556666666666666666665543

>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=98.47  E-value=2e-06  Score=70.06  Aligned_cols=128  Identities=11%  Similarity=-0.023  Sum_probs=99.0

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc--------------hhcHHHHHHHHhccCChhHHHHHHHHhhcCCC
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN--------------GPVYASMIGILSESNRITEMKEVIDQMKGDSC   76 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   76 (504)
                      +..+...+...|++++|+..|+++.+..|. .|+              ..+|..+..++...|++++|...++...+.. 
T Consensus        41 ~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           41 IKEEGNEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            455677888999999999999999987664 111              2678889999999999999999999999876 


Q ss_pred             CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHH-HHHHHh
Q 043204           77 ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAH-ILFLRS  141 (504)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-~~~~~~  141 (504)
                      +.+...+..+..++...|++++|...|+...+... .+..++..+...+...++..++. ..|..+
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66788899999999999999999999999887653 34566777777777777766655 334333

>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=98.46  E-value=1.3e-06  Score=65.39  Aligned_cols=96  Identities=18%  Similarity=0.190  Sum_probs=67.1

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc-------HHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK-------DSVF   83 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~   83 (504)
                      +..+...+...|++++|+..|+++.+..|.   +...+..+...+...|++++|...++...... +.+       ..++
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   82 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELDPT---NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCCc---cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-cccchhHHHHHHHH
Confidence            455667777777888888888877777654   56677777777777777777777777776543 112       5556


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      ..+..++...|++++|.+.|+...+..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            667777777777777777777766644

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.46  E-value=1.9e-06  Score=67.75  Aligned_cols=100  Identities=8%  Similarity=0.041  Sum_probs=78.1

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...|..+...+.+.|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|+..|+...+.+. .+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            45567777888888888888888888888776 55677788888888888888888888888877653 34667778888


Q ss_pred             HHHhcchHHHHHHHHHHhhcCC
Q 043204          124 EMVKESKLEAAHILFLRSCYGW  145 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~  145 (504)
                      .+...|++++|...|++.....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            8888888888888888776543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.45  E-value=2.1e-06  Score=62.16  Aligned_cols=99  Identities=11%  Similarity=-0.008  Sum_probs=55.8

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCC-ccHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCV-NWTQSFNTLL  122 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll  122 (504)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...|++..+.... .+...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            44555666666666667777776666666554 444555666666666666666666666666554321 0234444455


Q ss_pred             HHHHhc-chHHHHHHHHHHhhc
Q 043204          123 KEMVKE-SKLEAAHILFLRSCY  143 (504)
Q Consensus       123 ~~~~~~-~~~~~a~~~~~~~~~  143 (504)
                      ..+... |++++|.+.+++...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhh
Confidence            555555 555555555554443

>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=98.44  E-value=4.2e-06  Score=62.30  Aligned_cols=104  Identities=13%  Similarity=0.043  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCC--------cch
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPC--------VET  440 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------~~~  440 (504)
                      .+..+...+.+.|++++|++.|++..+.  .+.+...|..+..+|.+.|++++|.+.+++..+..  |+        ..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~~   85 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVG--RETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhC--cccchhhHHHHHH
Confidence            4555666667777777777777776654  12234566666777777777777777777666532  21        124


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 043204          441 YNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSS  478 (504)
Q Consensus       441 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  478 (504)
                      |..+..++...|++++|++.|++.++.  .||+.+...
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            555666777778888888888777753  455544443

>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=98.43  E-value=5.6e-06  Score=61.59  Aligned_cols=97  Identities=14%  Similarity=0.054  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHH
Q 043204          368 RVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRG  447 (504)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  447 (504)
                      ..+..+...+.+.|++++|...|++..+.  .+.+...|..+..+|.+.|++++|...+++..+.. +.+...|..+..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            34555666677777777777777777654  22345667777777777777777777777777653 2345566777777


Q ss_pred             HHccCCHHHHHHHHHHHHHc
Q 043204          448 LCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       448 ~~~~g~~~~a~~~~~~~~~~  467 (504)
                      +...|++++|.+.|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            77777777777777777743

>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=98.41  E-value=9.4e-06  Score=59.28  Aligned_cols=97  Identities=15%  Similarity=-0.013  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHH
Q 043204          367 VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIR  446 (504)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  446 (504)
                      ...+..+...+...|++++|...++.....  .+.+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            345555666666777777777777776654  12245566666667777777777777777766653 234556666667


Q ss_pred             HHHccCCHHHHHHHHHHHHH
Q 043204          447 GLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       447 ~~~~~g~~~~a~~~~~~~~~  466 (504)
                      ++...|++++|.+.+++..+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777777764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.41  E-value=7.3e-06  Score=61.19  Aligned_cols=99  Identities=10%  Similarity=-0.035  Sum_probs=79.2

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc---HHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK---DSVFATAI   87 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~   87 (504)
                      +-.+...+...|++++|+..|+.+.+..|+.......+..+..++...|++++|...|+...+.. +.+   ..++..+.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            44566778889999999999999998877622222577788888999999999999999988765 334   56678888


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCC
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      .++...|++++|...|+.+.+..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            88899999999999999887754

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.41  E-value=2.8e-06  Score=65.26  Aligned_cols=96  Identities=8%  Similarity=-0.041  Sum_probs=42.5

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc---HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHH
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECK---DSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTL  121 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (504)
                      ...+..+...+...|++++|.+.|++..+.. +.+   ...+..+..++...|++++|+..++...+... .+...+..+
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~  105 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD-ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG-GDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-CCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc-ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc-cCHHHHHHH
Confidence            3344444444444444444444444444432 111   33344444444444455555444444443321 123344444


Q ss_pred             HHHHHhcchHHHHHHHHHHhh
Q 043204          122 LKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~  142 (504)
                      ...+...|++++|...|++..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            444444555555555554444

>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=98.39  E-value=3.7e-07  Score=85.37  Aligned_cols=124  Identities=12%  Similarity=-0.021  Sum_probs=96.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+.+.|++++|++.|+++.+..|.   +..+|..+..++.+.|++++|.+.+++..+.. +.+..++..+..+|
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   84 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELNPS---NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   84 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            444555677889999999999999998776   78889999999999999999999999999886 66778888999999


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHH--HHhcchHHHHHHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKE--MVKESKLEAAHILFL  139 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~  139 (504)
                      ...|++++|++.|++..+.... +...+..+..+  +.+.|++++|...++
T Consensus        85 ~~~g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           85 MALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHTCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999988776432 23344444444  777888888888887

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.37  E-value=1.2e-05  Score=61.58  Aligned_cols=98  Identities=13%  Similarity=0.006  Sum_probs=62.2

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc----hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchH
Q 043204          366 TVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN----GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETY  441 (504)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  441 (504)
                      +...+..+...+...|++++|...|++..+.   .|+    ...+..+..+|...|++++|.+.+++..+.. +.+...|
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            4455556666666666777776666666542   344    4556666666777777777777777666642 2244556


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHc
Q 043204          442 NVLIRGLCSIGKQYEAVMWLEEMISQ  467 (504)
Q Consensus       442 ~~l~~~~~~~g~~~~a~~~~~~~~~~  467 (504)
                      ..+..++...|++++|.+.|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            66666777777777777777777643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.34  E-value=4.9e-06  Score=61.29  Aligned_cols=97  Identities=8%  Similarity=-0.062  Sum_probs=74.3

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEM  125 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (504)
                      ..+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.++ .+...+..+...+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~   95 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSH   95 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            345666777888888888888888888776 56777788888888888888888888888877653 2356777777888


Q ss_pred             HhcchHHHHHHHHHHhhcC
Q 043204          126 VKESKLEAAHILFLRSCYG  144 (504)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (504)
                      ...|++++|...|++....
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            8888888888888877643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.32  E-value=1.3e-05  Score=62.54  Aligned_cols=102  Identities=14%  Similarity=-0.013  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HH
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQGC-YPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IV  226 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  226 (504)
                      ++..+...+...|++++|.+.+++..+... .++    ...+..+...+...|++++|...+++........+..+. ..
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            455666667777777777777766544210 011    345666777778888888888888877544333332222 34


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          227 IYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       227 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .+..+...+...|++++|.+.+++..+.
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            6677788888888888888888887653

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.31  E-value=3.2e-05  Score=58.30  Aligned_cols=95  Identities=11%  Similarity=-0.055  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043204          116 QSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKG  195 (504)
Q Consensus       116 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  195 (504)
                      ..+..+...+...|++++|...|++.....  +.+...|..+..++...|++++|...|++..+... .+...+..+..+
T Consensus        10 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~   86 (137)
T 3q49_B           10 QELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHHH
Confidence            344444444444444444444444443321  11233445555555555555555555555554321 234455555555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 043204          196 LCNDRRLNEATHLLYSMF  213 (504)
Q Consensus       196 ~~~~~~~~~a~~~~~~~~  213 (504)
                      +...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555666666666555553

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.30  E-value=8.2e-06  Score=63.65  Aligned_cols=134  Identities=13%  Similarity=0.022  Sum_probs=74.5

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc----hh
Q 043204          333 MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT----VRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN----GE  404 (504)
Q Consensus       333 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~  404 (504)
                      ++..+...+...|++++|...+++++....-.++    ..++..+...+...|++++|.+.+++..+...-.++    ..
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            3445555555566666666655553332110111    124555666666677777777766665543111111    23


Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhc----Cc-CCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIR----SY-WPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      .+..+...+...|++++|.+.+++..+.    +. ......+..+...+...|++++|.+.+++..+
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            4556666777777777777777766543    10 01133455666677777777777777777664

>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=0.0014  Score=57.03  Aligned_cols=165  Identities=8%  Similarity=0.032  Sum_probs=85.0

Q ss_pred             hcCCH-HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC----------HHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Q 043204          163 QCRRS-DLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR----------LNEATHLLYSMFWRISQKGSGEDIVIYRTL  231 (504)
Q Consensus       163 ~~~~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l  231 (504)
                      +.|.+ ++|+++++.+...+.. +...|+.--..+...+.          +++++.+++.+    .....+ +..+|+.-
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~----L~~~PK-ny~aW~hR  114 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESC----LRVNPK-SYGTWHHR  114 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHH----HHHCTT-CHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHH----HHhCCC-CHHHHHHH
Confidence            34444 3677777777765321 22333332222222221          45666666666    333222 56666666


Q ss_pred             HHHHHhcCc--hhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          232 LFALCDQGK--IQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       232 ~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      ..++...++  +++++.+++.+.+....                                     |...|+.-.-.+...
T Consensus       115 ~wlL~~l~~~~~~~EL~~~~k~l~~dpr-------------------------------------Ny~AW~~R~~vl~~l  157 (331)
T 3dss_A          115 CWLLSRLPEPNWARELELCARFLEADER-------------------------------------NFHCWDYRRFVAAQA  157 (331)
T ss_dssp             HHHHHHCSSCCHHHHHHHHHHHHHHCTT-------------------------------------CHHHHHHHHHHHHHT
T ss_pred             HHHHhccCcccHHHHHHHHHHHHHhCCC-------------------------------------CHHHHHHHHHHHHHh
Confidence            555555553  66666777666665322                                     455555554445555


Q ss_pred             CC-hhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcC--------------CCHHHHHHHHHHHHhcCCCCccHHHHHHH
Q 043204          310 GR-IVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKD--------------GMVDEALEVIEEEMVKGTFVPTVRVYNIL  373 (504)
Q Consensus       310 ~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  373 (504)
                      |. ++++++.+..+.+..+. |...|+.....+.+.              +.++++++.+++++...  +-|...|+.+
T Consensus       158 ~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~  233 (331)
T 3dss_A          158 AVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYH  233 (331)
T ss_dssp             TCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            55 36666666666665443 555555444333332              33566666666655544  3344444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.28  E-value=2.6e-06  Score=62.48  Aligned_cols=88  Identities=8%  Similarity=0.021  Sum_probs=47.7

Q ss_pred             cCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 043204           21 QKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAV  100 (504)
Q Consensus        21 ~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (504)
                      .|++++|+..|+++.+..++-..+..++..+..++...|++++|...|++..+.. +.+..++..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            4566666666666665521101144555666666666666666666666666554 444555555666666666666666


Q ss_pred             HHHHHhhhC
Q 043204          101 SLFKNLSQF  109 (504)
Q Consensus       101 ~~~~~~~~~  109 (504)
                      ..|+...+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666655543

>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=98.28  E-value=8.6e-06  Score=75.83  Aligned_cols=122  Identities=8%  Similarity=-0.038  Sum_probs=78.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc-------------hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN-------------GPVYASMIGILSESNRITEMKEVIDQMKGDSCE   77 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (504)
                      +..+...+.+.|++++|+..|+++.+..|... +             ..+|..+..++.+.|++++|+..+++..+.. +
T Consensus       271 ~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~-~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          271 VKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEY-GLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCC-SCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHhcccc-cCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            45567778888999999999999988766411 0             3556666666667777777777776666655 4


Q ss_pred             ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHH
Q 043204           78 CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAH  135 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  135 (504)
                      .+...|..+..+|...|++++|+..|+...+... .+..++..+...+.+.++.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666777777777766665542 22345555555555556555544

>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=98.27  E-value=1e-05  Score=60.45  Aligned_cols=95  Identities=9%  Similarity=0.012  Sum_probs=42.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCc--CCC----cchHHH
Q 043204          370 YNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSY--WPC----VETYNV  443 (504)
Q Consensus       370 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~----~~~~~~  443 (504)
                      +..+...+...|++++|...+++..+.  .+.+...+..+..+|...|++++|...+++..+...  .++    ..+|..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            333444444444444554444444433  112333444444444445555555555544444310  001    334444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 043204          444 LIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       444 l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      +..++...|++++|.+.+++..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            44555555555555555555554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.27  E-value=5e-06  Score=65.12  Aligned_cols=100  Identities=20%  Similarity=0.201  Sum_probs=75.3

Q ss_pred             CchHHHHHHHhcCChhHHHHHHHHHHhc--------CCC-------CCcchhcHHHHHHHHhccCChhHHHHHHHHhhcC
Q 043204           10 TPTYLSQIIKKQKSPLTALKIFKEAKEK--------YPN-------YRHNGPVYASMIGILSESNRITEMKEVIDQMKGD   74 (504)
Q Consensus        10 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~p~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (504)
                      .+......+.+.|++++|+..|+++.+.        .|.       -..+...|..+..++.+.|++++|+..++...+.
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3556678888999999999999999886        111       0013456777778888888888888888888777


Q ss_pred             CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           75 SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      . +.+...|..+..++...|++++|...|+...+.+
T Consensus        93 ~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           93 E-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             C-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            6 5667777888888888888888888888777654

>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=98.26  E-value=8.9e-06  Score=73.20  Aligned_cols=122  Identities=7%  Similarity=-0.048  Sum_probs=72.5

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCC------------C-CcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCC
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPN------------Y-RHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCE   77 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~------------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (504)
                      +..+...+.+.|++++|+..|+++.+..|.            . ..+..+|..+..++.+.|++++|++.+++..+.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            455677788888999999988888873111            0 0134456666666666666666666666666654 4


Q ss_pred             ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHH
Q 043204           78 CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAA  134 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  134 (504)
                      .+...+..+..+|...|++++|+..|++..+... .+...+..+...+...++.+++
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            4555566666666666666666666666655432 2234444444444444444444

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.24  E-value=1.6e-06  Score=63.66  Aligned_cols=106  Identities=9%  Similarity=-0.039  Sum_probs=84.5

Q ss_pred             ccCChhHHHHHHHHhhcCC--CCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHH
Q 043204           57 ESNRITEMKEVIDQMKGDS--CECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAA  134 (504)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  134 (504)
                      ..|++++|+..|++..+.+  -+.+..++..+..+|...|++++|+..|++..+.++. +..++..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999999874  1345567899999999999999999999999887643 477888999999999999999


Q ss_pred             HHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204          135 HILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      ...|++.....+..|+...|...+..|..
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            99999988766666777777777766654

>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=98.21  E-value=1e-06  Score=82.05  Aligned_cols=96  Identities=11%  Similarity=-0.041  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043204          115 TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMK  194 (504)
Q Consensus       115 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  194 (504)
                      ...|..+..+|.+.|++++|+..+++.....  +.+...|..+..+|...|++++|...|++..+... -+...+..+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~  393 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISM  393 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            3455666666666666666666666665432  22455666667777777777777777777766532 24455666666


Q ss_pred             HHHhcCCHHHHH-HHHHHHH
Q 043204          195 GLCNDRRLNEAT-HLLYSMF  213 (504)
Q Consensus       195 ~~~~~~~~~~a~-~~~~~~~  213 (504)
                      ++.+.++.+++. ..+..|+
T Consensus       394 ~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          394 CQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            666666666555 3444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=4.3e-05  Score=56.89  Aligned_cols=95  Identities=8%  Similarity=-0.073  Sum_probs=53.9

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccH---HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCcc--HHHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKD---SVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNW--TQSFNTLL  122 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll  122 (504)
                      +..+...+...|++++|...|+.+.+.. +.+.   ..+..+..++...|++++|...|+...+......  ..++..+.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            3344556666677777777776666543 2222   3555666666666666666666666655432111  33445555


Q ss_pred             HHHHhcchHHHHHHHHHHhhc
Q 043204          123 KEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      ..+...|++++|...|+++..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            555556666666666655544

>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=98.16  E-value=1.8e-06  Score=80.68  Aligned_cols=125  Identities=6%  Similarity=-0.040  Sum_probs=96.3

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMV  126 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (504)
                      .+..+...+.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|++.+++..+.+. .+..++..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            34455566778899999999999998876 56678899999999999999999999999988763 45778888999999


Q ss_pred             hcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH--HhhcCCHHHHHHHHH
Q 043204          127 KESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV--LCQCRRSDLALHVFQ  175 (504)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  175 (504)
                      ..|++++|...|++.....+..+.  .+..+..+  +.+.|++++|.+.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p~~~~--~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKPHDKD--AKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCTT--HHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHH--HHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999998765333333  44444444  788899999999988

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.15  E-value=2.6e-05  Score=72.45  Aligned_cols=123  Identities=8%  Similarity=-0.011  Sum_probs=56.8

Q ss_pred             ccCChhHHHHHHHHhhcC-----CC-Ccc-HHHHHHHHHHHHhcCChhHHHHHHHHhhh-------CCCCccHHHHHHHH
Q 043204           57 ESNRITEMKEVIDQMKGD-----SC-ECK-DSVFATAIRTYARAGQLNEAVSLFKNLSQ-------FNCVNWTQSFNTLL  122 (504)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll  122 (504)
                      .+|++++|..++++..+.     |. -|+ ..+++.|..+|...|++++|+.++++..+       .+.+....+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            445555555555544421     10 111 13356666666666666666666555432       11122233455555


Q ss_pred             HHHHhcchHHHHHHHHHHhhc-----CCCCcch-HHHHHHHHHHHhhcCCHHHHHHHHHHhhh
Q 043204          123 KEMVKESKLEAAHILFLRSCY-----GWEVKSR-IQSLNLLMDVLCQCRRSDLALHVFQEMDF  179 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  179 (504)
                      ..|...|++++|+.++++...     -+...|+ ..+.+.+-.++...+.+++|+.+|..+.+
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555544431     0111222 22333444444555555555555555543

>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=98.14  E-value=2.2e-05  Score=59.63  Aligned_cols=95  Identities=14%  Similarity=0.004  Sum_probs=60.0

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCc----c-----hhcHHHHHHHHhccCChhHHHHHHHHhhcC-------C
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRH----N-----GPVYASMIGILSESNRITEMKEVIDQMKGD-------S   75 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~----~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~   75 (504)
                      ......+.+.|++++|+..|+++++..|....    +     ...|+.+..++.+.|++++|+..+++.++.       .
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            44566777899999999999999998775211    1     125666666666666666666666666554       3


Q ss_pred             CCccHHHH----HHHHHHHHhcCChhHHHHHHHHhh
Q 043204           76 CECKDSVF----ATAIRTYARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        76 ~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~  107 (504)
                       +.+...|    .....++...|++++|+..|+...
T Consensus        95 -pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           95 -QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             -STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence             3344445    555555555666666666555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.14  E-value=1.3e-06  Score=63.38  Aligned_cols=95  Identities=13%  Similarity=0.028  Sum_probs=68.6

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc------HH
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECK------DS   81 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~   81 (504)
                      ...+..+...+...|++++|+..|+++.+..|.   +...|..+..++...|++++|.+.+++..+.. +.+      ..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~   79 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ---NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHH
Confidence            345666777788888888888888888888766   67778888888888888888888888888765 333      44


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           82 VFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      .+..+..++...|+++.|...++.+
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            5566666666666666665555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.12  E-value=1.7e-05  Score=57.83  Aligned_cols=81  Identities=6%  Similarity=-0.069  Sum_probs=69.8

Q ss_pred             hHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHH
Q 043204           25 LTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFK  104 (504)
Q Consensus        25 ~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (504)
                      ++|+..|+++.+..|.   +...+..+...+...|++++|...|++..+.. +.+...|..+..++...|++++|...|+
T Consensus         2 ~~a~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~   77 (115)
T 2kat_A            2 QAITERLEAMLAQGTD---NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWE   77 (115)
T ss_dssp             CCHHHHHHHHHTTTCC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCC---cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4678889999888776   78888999999999999999999999998876 5667788889999999999999999999


Q ss_pred             HhhhC
Q 043204          105 NLSQF  109 (504)
Q Consensus       105 ~~~~~  109 (504)
                      ...+.
T Consensus        78 ~al~~   82 (115)
T 2kat_A           78 SGLAA   82 (115)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.09  E-value=7.8e-06  Score=72.73  Aligned_cols=146  Identities=7%  Similarity=-0.040  Sum_probs=69.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+.+.|++++|+..|+++....|.    ..       .+...++..++...+.          ...|..+..+|
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~----~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIAYMGD----DF-------MFQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHHHSCH----HH-------HHTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhcc----ch-------hhhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            344556666788888888888888877542    11       1122233333322221          13566677777


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH-HhhcCCHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV-LCQCRRSDL  169 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~  169 (504)
                      .+.|++++|+..|+...+.+ +.+...|..+..+|...|++++|...|++.....+.  +...+..+... ....+..+.
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~--~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD--DKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777776654 234566777777777777777777777777643221  23334444444 233456667


Q ss_pred             HHHHHHHhhhC
Q 043204          170 ALHVFQEMDFQ  180 (504)
Q Consensus       170 a~~~~~~~~~~  180 (504)
                      +.+.|..|...
T Consensus       318 a~~~~~~~l~~  328 (338)
T 2if4_A          318 QKEMYKGIFKG  328 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHhhCC
Confidence            77777777654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.06  E-value=1.6e-05  Score=70.70  Aligned_cols=114  Identities=12%  Similarity=-0.016  Sum_probs=60.7

Q ss_pred             chhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHH
Q 043204          330 SLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGIL  409 (504)
Q Consensus       330 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l  409 (504)
                      ....+..+...+.+.|++++|...|++++...   |+...       +...++.+++...+           ....|..+
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~-------~~~~~~~~~~~~~l-----------~~~~~~nl  236 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM---GDDFM-------FQLYGKYQDMALAV-----------KNPCHLNI  236 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS---CHHHH-------HTCCHHHHHHHHHH-----------HTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh---ccchh-------hhhcccHHHHHHHH-----------HHHHHHHH
Confidence            45567777888888899999999888866543   44331       11111112111110           01144445


Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH
Q 043204          410 VDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       410 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      ..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus       237 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al  291 (338)
T 2if4_A          237 AACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQ  291 (338)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555555555555555532 2234455555555555555555555555554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.04  E-value=4.3e-05  Score=59.69  Aligned_cols=69  Identities=17%  Similarity=0.050  Sum_probs=48.6

Q ss_pred             hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 043204          403 GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDIS  474 (504)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  474 (504)
                      ...|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|++..+.  .|+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            3466677777777788888888777777753 334566777777777888888888888777754  45544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.97  E-value=0.0004  Score=66.17  Aligned_cols=134  Identities=7%  Similarity=-0.047  Sum_probs=87.1

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCC----------hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNR----------ITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      ..++|++.++.+...+|.   +..+|+.--.++...|+          ++++.+.++.+.+.. +-+..+|+.-.-++.+
T Consensus        44 ~~eeal~~~~~~l~~nP~---~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           44 LDESVLELTSQILGANPD---FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHCch---hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            345677888888877776   66677766666666665          777777777777766 5566677777777777


Q ss_pred             cC--ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhh
Q 043204           93 AG--QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES-KLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQ  163 (504)
Q Consensus        93 ~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  163 (504)
                      .+  +++++++.++.+.+.+.. +..+|+.-...+.+.| .++++++.++++....  +-+..+|+.....+.+
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~  190 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHh
Confidence            77  557777777777776633 3556666666666666 6667777766665442  2244455554444433

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.96  E-value=6.3e-05  Score=67.65  Aligned_cols=90  Identities=13%  Similarity=-0.061  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043204          115 TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMK  194 (504)
Q Consensus       115 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  194 (504)
                      ..+|..+...|.+.|++++|+..+++.....  +.+...|..+..+|...|++++|.+.|++..+... .+...+..+..
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~  349 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            3455556666666666666666666665432  12344556666666666666666666666665421 14445555555


Q ss_pred             HHHhcCCHHHHHH
Q 043204          195 GLCNDRRLNEATH  207 (504)
Q Consensus       195 ~~~~~~~~~~a~~  207 (504)
                      ++...++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.95  E-value=1.7e-05  Score=60.04  Aligned_cols=89  Identities=11%  Similarity=0.034  Sum_probs=71.6

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCCh----------hHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRI----------TEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      ..+.+.+++|++.++...+..|+   +...|..+..++...+++          ++|+..|++..+.. +.+..+|..+.
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P~---~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG   87 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNPL---DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIG   87 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            44567789999999999999888   899999999999888775          48888888888887 66677888888


Q ss_pred             HHHHhcC-----------ChhHHHHHHHHhhhCC
Q 043204           88 RTYARAG-----------QLNEAVSLFKNLSQFN  110 (504)
Q Consensus        88 ~~~~~~~-----------~~~~a~~~~~~~~~~~  110 (504)
                      .+|...|           ++++|++.|++..+.+
T Consensus        88 ~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           88 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            8887764           6777777777766654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.92  E-value=7.3e-05  Score=51.45  Aligned_cols=76  Identities=14%  Similarity=0.025  Sum_probs=38.8

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTY   90 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (504)
                      +..+...+...|++++|+..|+++.+..|.   +..++..+..++...|++++|...|++..+.. +.+...+..+..++
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDPN---NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            334445555555555555555555555443   44455555555555555555555555555443 33334444444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.86  E-value=0.00028  Score=65.53  Aligned_cols=131  Identities=8%  Similarity=-0.045  Sum_probs=97.3

Q ss_pred             HHHhcchHHHHHHHHHHhhcC-----CCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-----CC-CCC-HhhHH
Q 043204          124 EMVKESKLEAAHILFLRSCYG-----WEVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-----GC-YPD-RESYH  190 (504)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~p~-~~~~~  190 (504)
                      .+...|++++|+.++++....     +...| ...+++.|...|...|++++|+.++++..+.     |. .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355779999999999877531     12233 3667999999999999999999999887642     21 222 35788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhh-CCCC-cC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          191 ILMKGLCNDRRLNEATHLLYSMFWRISQ-KGSG-ED-IVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       191 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                      .|...|...|++++|+.++++.++.... .|.. |+ ..+.+.+..++...+.+++|...+..+.+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999988654332 2322 22 345567778888899999999999998764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.86  E-value=0.00022  Score=54.18  Aligned_cols=95  Identities=14%  Similarity=0.007  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCc-------------hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc---
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVAN-------------GETYGILVDGLCRDGRFLEASRVLEEMLIR---  432 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  432 (504)
                      .+......+.+.|++++|+..|++..+.   .|+             ...|..+..++.+.|++++|...+++.++.   
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            3445556677778888888888887764   232             227888888899999999999999988875   


Q ss_pred             --CcCCC-cchH----HHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          433 --SYWPC-VETY----NVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       433 --~~~~~-~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                        .+.|+ ...|    .....++...|++++|++.|++..+
T Consensus        90 ~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           90 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence              11354 4567    7888889999999999999999874

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.86  E-value=7.1e-05  Score=54.40  Aligned_cols=80  Identities=15%  Similarity=0.162  Sum_probs=59.9

Q ss_pred             hHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHh
Q 043204           62 TEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRS  141 (504)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  141 (504)
                      ++|.+.|++..+.. +.+...+..+...+...|++++|+..|+...+.+. .+...+..+...+...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35677777777765 56677788888888888888888888888776653 33567777778888888888888888776


Q ss_pred             hc
Q 043204          142 CY  143 (504)
Q Consensus       142 ~~  143 (504)
                      ..
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.79  E-value=0.0017  Score=61.88  Aligned_cols=136  Identities=8%  Similarity=-0.058  Sum_probs=72.9

Q ss_pred             hhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCC--CHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC-ChHHHHH
Q 043204          312 IVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDG--MVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAG-NSAVAVM  388 (504)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~  388 (504)
                      +++++..++.+.+..++ +..+|..-...+.+.+  +++++++.+++++...  +-+...|+.-...+.+.| .++++++
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~  165 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELA  165 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHH
Confidence            56666666666665443 5555555555555566  4566666666644443  335555655555555556 5666666


Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHHhhc--------------CcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCC
Q 043204          389 YLKKMSKQVGCVANGETYGILVDGLCRD--------------GRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGK  453 (504)
Q Consensus       389 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  453 (504)
                      .++++.+.  ..-|...|+.....+.+.              +.++++.+.+++..... +-|...|..+-..+.+.++
T Consensus       166 ~~~~~I~~--~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          166 FTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHH--CCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence            66666543  122444454444443332              34556666666555543 2344555555545544444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.79  E-value=1.9e-05  Score=56.98  Aligned_cols=66  Identities=9%  Similarity=0.059  Sum_probs=52.2

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      +...+..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|++.|+...+..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            45667777888888888888888888888765 5567778888888888888888888888877655

>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=97.68  E-value=0.0013  Score=49.44  Aligned_cols=85  Identities=14%  Similarity=0.037  Sum_probs=37.4

Q ss_pred             HHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc--
Q 043204          377 LCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS--  450 (504)
Q Consensus       377 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  450 (504)
                      |...+..++|.+.|++..+. +   +...+..|...|..    .++.++|.+.|++..+.|   ++..+..|...|..  
T Consensus        35 y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~  107 (138)
T 1klx_A           35 SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGK  107 (138)
T ss_dssp             TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             HHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCC
Confidence            33333444444444444432 1   23333444444443    444555555555444443   33344444444444  


Q ss_pred             --cCCHHHHHHHHHHHHHcC
Q 043204          451 --IGKQYEAVMWLEEMISQA  468 (504)
Q Consensus       451 --~g~~~~a~~~~~~~~~~~  468 (504)
                        .+++++|.++|++..+.|
T Consensus       108 g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          108 GVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCcCHHHHHHHHHHHHHCC
Confidence              445555555555554443

>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=97.67  E-value=0.001  Score=49.93  Aligned_cols=112  Identities=12%  Similarity=-0.071  Sum_probs=88.5

Q ss_pred             CChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc----cCCHHH
Q 043204          381 GNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS----IGKQYE  456 (504)
Q Consensus       381 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  456 (504)
                      +++++|.+.|++..+. + .|+.  .  |...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4678899999999886 5 2332  2  7788888889999999999999976   67788888888887    899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhc---CCCchhHHHHHHHHhhcCC
Q 043204          457 AVMWLEEMISQAKLPDISVWSSLVASVCC---NTADLNVCRKTLEQLSSCS  504 (504)
Q Consensus       457 a~~~~~~~~~~~~~p~~~~~~~ll~~~~~---~~~~~~~a~~~~~~~~~~~  504 (504)
                      |+++|++..+.|   +......|-..|..   ..+|.++|..++++..+.|
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            999999999875   45555556555554   1456999999999887654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.60  E-value=0.00045  Score=47.33  Aligned_cols=65  Identities=9%  Similarity=0.157  Sum_probs=39.1

Q ss_pred             hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           45 GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      ...+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...|++..+..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455555666666666666666666666554 3445556666666666666666666666655543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.58  E-value=0.00024  Score=49.99  Aligned_cols=63  Identities=5%  Similarity=0.047  Sum_probs=36.1

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhh
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (504)
                      +...+..+..++...|++++|...|++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555555556666666666666666655554 3444555555666666666666666655544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.48  E-value=0.00035  Score=49.06  Aligned_cols=65  Identities=11%  Similarity=0.077  Sum_probs=47.0

Q ss_pred             CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           77 ECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      +.+...+..+..++...|++++|+..|+...+.+.. +..+|..+..+|...|++++|...|++..
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345566777778888888888888888887766532 35567777777778888888877777665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.47  E-value=0.00013  Score=51.17  Aligned_cols=59  Identities=12%  Similarity=-0.009  Sum_probs=45.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchh-cHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGP-VYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      ....+...|++++|+..|+++.+..|.   +.. .+..+..++...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV---GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS---THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            456677778888888888888877665   666 77777778888888888888888877765

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.45  E-value=0.00037  Score=52.84  Aligned_cols=85  Identities=7%  Similarity=0.049  Sum_probs=57.8

Q ss_pred             hccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChh----------HHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 043204           56 SESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLN----------EAVSLFKNLSQFNCVNWTQSFNTLLKEM  125 (504)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (504)
                      .+.+.+++|.+.++...+.. +.+...|..+..++...++++          +|+..|++..+.++. ...+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            34567788888888888877 677788888888888777654          777777777666532 355666677777


Q ss_pred             Hhcc-----------hHHHHHHHHHHhh
Q 043204          126 VKES-----------KLEAAHILFLRSC  142 (504)
Q Consensus       126 ~~~~-----------~~~~a~~~~~~~~  142 (504)
                      ...|           ++++|+..|++..
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl  118 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAV  118 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHH
Confidence            6654           4555555555544

>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=97.34  E-value=0.0024  Score=55.91  Aligned_cols=75  Identities=9%  Similarity=-0.106  Sum_probs=50.3

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043204          112 VNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHI  191 (504)
Q Consensus       112 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  191 (504)
                      +.+..+|..+...+...|++++|...++++..-.   |+...|..+...+.-.|++++|.+.|++....  .|...+|..
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln---~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~  348 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE---MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYW  348 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHH
Confidence            3445666666666666677777777777776542   56666666677777778888888877777665  456566543

>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=97.20  E-value=0.01  Score=52.05  Aligned_cols=74  Identities=14%  Similarity=-0.024  Sum_probs=58.1

Q ss_pred             CCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 043204          400 VANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWS  477 (504)
Q Consensus       400 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  477 (504)
                      +.+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....  .|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            4566777777777777799999999999988875  77767777777888889999999999888854  57776654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.19  E-value=1.5e-06  Score=77.09  Aligned_cols=217  Identities=13%  Similarity=0.092  Sum_probs=135.1

Q ss_pred             CCCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH
Q 043204            4 RWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF   83 (504)
Q Consensus         4 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (504)
                      +...+..|..|..+..+.+...+|++.|=++     +   |+..|..++.+..+.|.+++-...+....+..  .++.+=
T Consensus        50 ~~n~p~VWs~LgkAqL~~~~v~eAIdsyIkA-----~---Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~ID  119 (624)
T 3lvg_A           50 RCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA-----D---DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVE  119 (624)
T ss_dssp             SCCCCCCSSSHHHHTTTSSSCTTTTTSSCCC-----S---CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTT
T ss_pred             HhCCccHHHHHHHHHHccCchHHHHHHHHhC-----C---ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccH
Confidence            3455677888999999999988888766322     2   67788899999999999999999888777653  344445


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCC------------------
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGW------------------  145 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------  145 (504)
                      +.|+-+|++.++..+.++.+.       .|+..-...+.+-|...|.++.|.-+|..+..-.                  
T Consensus       120 teLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVda  192 (624)
T 3lvg_A          120 TELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDG  192 (624)
T ss_dssp             HHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTT
T ss_pred             HHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHH
Confidence            678889999888776554432       1222233567777778888887777776543110                  


Q ss_pred             -CCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCC-Cc
Q 043204          146 -EVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGS-GE  223 (504)
Q Consensus       146 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~  223 (504)
                       .-..++.||-.+-.+|...+.+.-|.-.--.+.-.   ||  -...++..|-..|.+++-..+++..    .  |. ..
T Consensus       193 ArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEag----l--glErA  261 (624)
T 3lvg_A          193 ARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAA----L--GLERA  261 (624)
T ss_dssp             TTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHH----T--TSTTC
T ss_pred             HHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHH----h--CCCch
Confidence             01123445666666666666655554443333321   11  1233455566677777777776654    2  22 23


Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          224 DIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       224 ~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      ....|+.|.-.|++- ++++..+.++
T Consensus       262 HmGmFTELaILYsKY-~PeKlmEHlk  286 (624)
T 3lvg_A          262 HMGMFTELAILYSKF-KPQKMREHLE  286 (624)
T ss_dssp             CHHHHHHHHHHHHSS-CTTHHHHHHT
T ss_pred             hHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            566777777777764 4444444443

>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=97.15  E-value=0.0018  Score=59.06  Aligned_cols=61  Identities=8%  Similarity=0.026  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhh-------CCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           82 VFATAIRTYARAGQLNEAVSLFKNLSQ-------FNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      +++.+..+|...|++++|+.++++..+       .+.+....+++.|...|...|++++|+.++++..
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            355555555556666655555554432       1112223455666666666666666666665544

>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=97.01  E-value=0.0036  Score=57.23  Aligned_cols=60  Identities=12%  Similarity=-0.037  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhh-------CCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           83 FATAIRTYARAGQLNEAVSLFKNLSQ-------FNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      ++.+..+|...|++++|+.++++..+       ...+....+++.|...|...|++++|+.++++..
T Consensus       332 ~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          332 LDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            45555555555555555555554331       1111223345555555555566555555555543

>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=97.00  E-value=0.0035  Score=57.19  Aligned_cols=87  Identities=9%  Similarity=-0.158  Sum_probs=54.3

Q ss_pred             chHHHHHHHHHHhhc-----CCCCcch-HHHHHHHHHHHhhcCCHHHHHHHHHHhhh-----CCC-CCC-HhhHHHHHHH
Q 043204          129 SKLEAAHILFLRSCY-----GWEVKSR-IQSLNLLMDVLCQCRRSDLALHVFQEMDF-----QGC-YPD-RESYHILMKG  195 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~-----~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~p~-~~~~~~l~~~  195 (504)
                      |++++|+.++++...     -....|+ ..+++.|..+|...|++++|+.++++..+     .|. .|+ ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            455666665555432     1112233 45677777778778888888777776654     121 222 3557777778


Q ss_pred             HHhcCCHHHHHHHHHHHHHH
Q 043204          196 LCNDRRLNEATHLLYSMFWR  215 (504)
Q Consensus       196 ~~~~~~~~~a~~~~~~~~~~  215 (504)
                      |...|++++|+.++++.++.
T Consensus       392 ~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHH
Confidence            88888888888888777544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.98  E-value=0.00022  Score=63.81  Aligned_cols=406  Identities=11%  Similarity=0.028  Sum_probs=234.6

Q ss_pred             CCCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHH
Q 043204            4 RWPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVF   83 (504)
Q Consensus         4 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (504)
                      +.-|+..|..++.+..+.|.+++-+..+.-+++..    .+...=+.|+-+|++.++..+..+.+.       .||..-.
T Consensus        79 kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~----ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~i  147 (624)
T 3lvg_A           79 KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA----RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHI  147 (624)
T ss_dssp             CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC----CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCT
T ss_pred             hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh----cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccH
Confidence            45678889999999999999999999887776652    244555789999999999876544332       4666667


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCC--------------------CCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           84 ATAIRTYARAGQLNEAVSLFKNLSQFN--------------------CVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      ..+.+-|...|.++.|.-+|..+....                    -..++.||..+-.+|...+++.-|...--.+.-
T Consensus       148 q~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv  227 (624)
T 3lvg_A          148 QQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV  227 (624)
T ss_dssp             HHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc
Confidence            788889999999999988887653211                    123456788888899999998888766655554


Q ss_pred             CCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCc
Q 043204          144 GWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGE  223 (504)
Q Consensus       144 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  223 (504)
                      ..+.-      ..++..|-..|.+++-+.+++.-.... ......|+-|.-.|++- ++++..+-++...   .+-+++.
T Consensus       228 hadeL------~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~---sriNipK  296 (624)
T 3lvg_A          228 HADEL------EELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFW---SRVNIPK  296 (624)
T ss_dssp             CSSCC------SGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSS---SSSCCTT
T ss_pred             cHHHH------HHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHH---HhccHHH
Confidence            33333      336677899999999999999877432 34677888888877765 4455444443321   1111111


Q ss_pred             ------CHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChh
Q 043204          224 ------DIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLA  297 (504)
Q Consensus       224 ------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  297 (504)
                            ....|..++-.|.+-.+++.|....   ..   .|+...-.........+..+.+.-.+.+.-.++.    .+.
T Consensus       297 viracE~ahLW~ElvfLY~~ydE~DnA~ltM---i~---h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FYL~e----~P~  366 (624)
T 3lvg_A          297 VLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MN---HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPL  366 (624)
T ss_dssp             THHHHTTTTCHHHHHHHHHHHTCHHHHHHTT---TS---CHHHHCCGGGGTTTGGGCSCSHHHHHHHHHHTTS----CCT
T ss_pred             HHHHHHHHhhHHHHHHHHhcchhHHHHHHHH---Hh---CChhhccHHHHHHHHHHcchHHHHHHHHHHHHHh----ChH
Confidence                  2344666666666666666554322   11   1222223333344555556666555555544443    334


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHC--------CC--CcchhhHHHHHHHHhcCCCHHHHHH------------HHH
Q 043204          298 SYSAMAIDLYNEGRIVEGDKVLDEMRTK--------GF--WPSLVMYEAKLAALFKDGMVDEALE------------VIE  355 (504)
Q Consensus       298 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~--~~~~~~~~~l~~~~~~~~~~~~a~~------------~~~  355 (504)
                      ..+.++..+...=+...+.++|++.-..        .+  .-+..+-.++-+.|....+++.-..            +-+
T Consensus       367 lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~SId~ydNFD~i~LA~  446 (624)
T 3lvg_A          367 LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQ  446 (624)
T ss_dssp             TSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHHTTSSCCCSCTTHHHH
T ss_pred             HHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHHHHHHhccccHHHHHH
Confidence            4666666666665666666655532210        00  1122223344445555555443222            112


Q ss_pred             HHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcC
Q 043204          356 EEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYW  435 (504)
Q Consensus       356 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  435 (504)
                      + +++.   +-...-..-...|.+++++++++.+.++          ...|.-.|...+..|+.+-|.++++-..+.|  
T Consensus       447 r-LEkH---eL~eFRrIAA~LYkkn~rw~qsi~l~Kk----------DklykDAietAa~S~~~elaeeLL~yFv~~g--  510 (624)
T 3lvg_A          447 R-LEKH---ELIEFRRIAAYLFKGNNRWKQSVELCKK----------DSLYKDAMQYASESKDTELAEELLQWFLQEE--  510 (624)
T ss_dssp             H-HHTC---SSHHHHHHHHHHHHTTCHHHHHSSCSST----------TCCTTGGGTTTTTCCCTTHHHHHHHHHHHHC--
T ss_pred             H-HhhC---chHHHHHHHHHHHHhcccHHHHHHHHHh----------cccHHHHHHHHHHcCCHHHHHHHHHHHHHcC--
Confidence            1 2222   1122222233345666666666543322          1223333444555666666666666666554  


Q ss_pred             CCcchHHHHHHHHHccCCHHHHH
Q 043204          436 PCVETYNVLIRGLCSIGKQYEAV  458 (504)
Q Consensus       436 ~~~~~~~~l~~~~~~~g~~~~a~  458 (504)
                       +..+|...+-.|...=+++-++
T Consensus       511 -~~EcF~a~LytCYdLlrpDvVl  532 (624)
T 3lvg_A          511 -KRECFGACLFTCYDLLRPDVVL  532 (624)
T ss_dssp             -STHHHHHHHHHTSSSSSCHHHH
T ss_pred             -chHHHHHHHHHHhhccChHHHH
Confidence             4445555555554444444433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.96  E-value=0.0018  Score=45.19  Aligned_cols=60  Identities=12%  Similarity=0.212  Sum_probs=45.0

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHH-HHHHHHHHHHhcCChhHHHHHHHHhhhCCC
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDS-VFATAIRTYARAGQLNEAVSLFKNLSQFNC  111 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  111 (504)
                      ....+...|++++|.+.|+...+.. +.+.. .+..+..++...|++++|.+.|+...+.+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            4556677788888888888887765 45556 777778888888888888888888776553

>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=96.95  E-value=0.036  Score=46.49  Aligned_cols=97  Identities=13%  Similarity=0.105  Sum_probs=65.2

Q ss_pred             hHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc-----CCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh-cCCHH
Q 043204          130 KLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC-----RRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN-DRRLN  203 (504)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~  203 (504)
                      ....|...+++..+-.+--.+-..|..+...|...     |+.++|.+.|++..+.+..-+..++......++. .|+.+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            34667777777765432222355778888888884     8888888888888876432236667777777777 48888


Q ss_pred             HHHHHHHHHHHHHhhCCCC--cCHHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSG--EDIVIYRT  230 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~  230 (504)
                      .+.+.+++.    ......  |+....+.
T Consensus       258 ~a~~~L~kA----L~a~p~~~P~~~lan~  282 (301)
T 3u64_A          258 GFDEALDRA----LAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHHHHHHH----HHCCGGGCSSCHHHHH
T ss_pred             HHHHHHHHH----HcCCCCCCCChhHHHH
Confidence            888888888    555555  55444433

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.92  E-value=0.0079  Score=54.95  Aligned_cols=95  Identities=14%  Similarity=-0.007  Sum_probs=69.0

Q ss_pred             HHHHHhcchHHHHHHHHHHhhcCC-----CCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC-----C-CCCC-Hhh
Q 043204          122 LKEMVKESKLEAAHILFLRSCYGW-----EVKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ-----G-CYPD-RES  188 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~p~-~~~  188 (504)
                      +..+.+.|++++|+.++++.....     ...| ...+++.|...|...|++++|+.++++..+-     | -.|+ ..+
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            455667788888888888776421     1222 3567888888999999999999988877541     2 1222 356


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRI  216 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  216 (504)
                      ++.|...|...|++++|+.++++.++.+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~  401 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIM  401 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            8888888999999999999998886543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.89  E-value=0.0039  Score=42.72  Aligned_cols=49  Identities=12%  Similarity=0.006  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      .++|..+|+++++.+|.   ++.++..+...+.+.|++++|+..|+.+.+..
T Consensus        25 ~~~A~~~l~~AL~~dp~---~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY---NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHCcC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45666666666666555   55556566666666666666666666666554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.84  E-value=0.46  Score=47.37  Aligned_cols=266  Identities=13%  Similarity=0.065  Sum_probs=134.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHhhCC--CCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCC--C----Ccch--hhh
Q 043204          196 LCNDRRLNEATHLLYSMFWRISQKG--SGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLK--A----PKSR--RHR  265 (504)
Q Consensus       196 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~----~~~~--~~~  265 (504)
                      ....|+.++++.+++..    ...+  -.+....-..+.-+....|..+++..++...+...-.  .    +...  ...
T Consensus       384 lIh~g~~~~gl~~L~~y----L~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaL  459 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPY----LPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASL  459 (963)
T ss_dssp             HHTSSCTTTHHHHHTTT----STTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHh----ccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHH
Confidence            45667777777776655    2211  1122223333334455555555677777776654210  0    0011  111


Q ss_pred             hhccccCCCCChHHHHHHHHHHHHcCCCCChhhHH--HHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhc
Q 043204          266 IDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYS--AMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFK  343 (504)
Q Consensus       266 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  343 (504)
                      -+..++...++. ++...+..++.... +......  .+...+...|+.+....++..+.+.. .-+..-...+.-++..
T Consensus       460 GLGla~~GS~~e-ev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~  536 (963)
T 4ady_A          460 GIGLAAMGSANI-EVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALIN  536 (963)
T ss_dssp             HHHHHSTTCCCH-HHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCCCH-HHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhh
Confidence            123334444443 44455555444311 0111112  22223345577777777777776642 1122222333334456


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCccHHHHH--HHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHH
Q 043204          344 DGMVDEALEVIEEEMVKGTFVPTVRVYN--ILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE  421 (504)
Q Consensus       344 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  421 (504)
                      .|+.+.+..+++. +... ..|....-.  .+.-+|+..|+.....++++.+.+.  ...+..-...+.-++...|+.+.
T Consensus       537 ~g~~e~~~~li~~-L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~  612 (963)
T 4ady_A          537 YGRQELADDLITK-MLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTT  612 (963)
T ss_dssp             TTCGGGGHHHHHH-HHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSS
T ss_pred             CCChHHHHHHHHH-HHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHH
Confidence            7888888877776 4432 122222222  2334567788887777788888764  22233333333344555677777


Q ss_pred             HHHHHHHHHhcCcCCCcchHHHHHHHHHccCCH-HHHHHHHHHHHHcCCCCCHHHH
Q 043204          422 ASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQ-YEAVMWLEEMISQAKLPDISVW  476 (504)
Q Consensus       422 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~  476 (504)
                      +.++++.+.+.+ .|....-..+.-+....|+. .+|+..+..+..   .+|..+-
T Consensus       613 v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vr  664 (963)
T 4ady_A          613 VPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVR  664 (963)
T ss_dssp             HHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHH
T ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHH
Confidence            777777666543 34444334444455555554 577888888863   3454443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.68  E-value=0.011  Score=40.50  Aligned_cols=68  Identities=12%  Similarity=0.042  Sum_probs=51.5

Q ss_pred             chhcHHHHHHHHhccCC---hhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCC
Q 043204           44 NGPVYASMIGILSESNR---ITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCV  112 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (504)
                      |...+..+..++...++   .++|..+|++..+.+ +.+......+...+.+.|++++|+..|+.+.+.+..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            66677777777754444   688888888888877 667777788888888888888888888888776543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.55  E-value=0.13  Score=37.13  Aligned_cols=137  Identities=17%  Similarity=0.111  Sum_probs=86.3

Q ss_pred             CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHH
Q 043204          310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMY  389 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  389 (504)
                      |..++..++..+.....   +..-+|.+|--....-+-+-..++++. +-+.   -|          ...+|+.......
T Consensus        21 G~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~-IGki---FD----------is~C~NlKrVi~C   83 (172)
T 1wy6_A           21 GYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDK-IGSY---FD----------LDKCQNLKSVVEC   83 (172)
T ss_dssp             TCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHH-HGGG---SC----------GGGCSCTHHHHHH
T ss_pred             hhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHH-Hhhh---cC----------cHhhhcHHHHHHH
Confidence            66666666666665542   444555555555555555555555544 2221   11          1234455555444


Q ss_pred             HHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 043204          390 LKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAK  469 (504)
Q Consensus       390 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  469 (504)
                      +-.+-      .+.......++.....|.-+.-.+++..+.. +.+|++...-.+..+|.+.|+..+|.+++.+..+.|+
T Consensus        84 ~~~~n------~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           84 GVINN------TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHTT------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhc------chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            44332      2344556677788888888888888888654 3467888888888899999999999999999888876


Q ss_pred             C
Q 043204          470 L  470 (504)
Q Consensus       470 ~  470 (504)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.41  E-value=0.22  Score=38.34  Aligned_cols=44  Identities=9%  Similarity=0.151  Sum_probs=19.9

Q ss_pred             ccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           57 ESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      +.|+++.|.++.+.+      .+...|..|.......|+++-|++.|...
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            344444444444433      12334444444444444444444444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.37  E-value=0.034  Score=41.62  Aligned_cols=65  Identities=12%  Similarity=0.071  Sum_probs=30.6

Q ss_pred             ccHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHhcCCCC--chhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          365 PTVRVYNILLKGLCDAG---NSAVAVMYLKKMSKQVGCVA--NGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       365 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      ++..+...+..++++.+   +.++++.+++.+.+. . .|  +...+-.|.-+|.+.|++++|.+.++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            44444444555555554   334555555555544 2 12  122223333444555555555555555554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.37  E-value=0.1  Score=52.60  Aligned_cols=130  Identities=12%  Similarity=0.143  Sum_probs=71.6

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE  128 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (504)
                      ..++..+.+.|.+++|.++.+.       |.     .-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5556666666666666654421       11     1123345567777777665433      2345667777777777


Q ss_pred             chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043204          129 SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHL  208 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  208 (504)
                      ++++.|.+.|.++..          |..+...+...|+.+...++-+.....|      -++....++.+.|++++|.++
T Consensus       695 ~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~  758 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDL  758 (814)
T ss_dssp             TCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHH
Confidence            777777777766631          2344444555666665555554444432      133344445556666666666


Q ss_pred             HHHH
Q 043204          209 LYSM  212 (504)
Q Consensus       209 ~~~~  212 (504)
                      +.++
T Consensus       759 ~~~~  762 (814)
T 3mkq_A          759 LIKS  762 (814)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            5544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.33  E-value=0.041  Score=55.43  Aligned_cols=130  Identities=12%  Similarity=0.009  Sum_probs=77.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 043204          300 SAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCD  379 (504)
Q Consensus       300 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (504)
                      ..++..+.+.|..+.|.++.+.-.            .-.......|+++.|.++.+.       ..+...|..+...+.+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~~~-------~~~~~~W~~la~~al~  693 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLLTD-------ESAEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHHTT-------CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHHHh-------hCcHhHHHHHHHHHHH
Confidence            455555556677776665542111            112334566788888776553       2456788888888888


Q ss_pred             cCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHH
Q 043204          380 AGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVM  459 (504)
Q Consensus       380 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  459 (504)
                      .|+++.|.+.|..+..          |..+...|...|+.+...++.+.....|      -++....+|.+.|++++|++
T Consensus       694 ~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~  757 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKD  757 (814)
T ss_dssp             TTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHH
T ss_pred             cCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHH
Confidence            8888888888887642          3445555555666666555555555443      23334444555666666666


Q ss_pred             HHHHH
Q 043204          460 WLEEM  464 (504)
Q Consensus       460 ~~~~~  464 (504)
                      ++.++
T Consensus       758 ~~~~~  762 (814)
T 3mkq_A          758 LLIKS  762 (814)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            65554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.30  E-value=1  Score=44.93  Aligned_cols=259  Identities=10%  Similarity=0.059  Sum_probs=126.7

Q ss_pred             HHhcCchhHHHHHHHHHHHcCCCCC-cchhhhhhccccCCCCChHHHHHHHHHHHHcCC-------CCChhhHHHHHHHH
Q 043204          235 LCDQGKIQDAMQILEKILRKGLKAP-KSRRHRIDLCPCNDGEDIEGAKSLINEALIRGG-------IPSLASYSAMAIDL  306 (504)
Q Consensus       235 ~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~ll~~~  306 (504)
                      ....|+.++++.++...+..+.... ....-.++.-.....|..+.+..++...+...-       .+....-..+.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            4445666666666654433110001 111222222222333433456776666654321       01111122222223


Q ss_pred             HhcCC-hhHHHHHHHHHHHCCCCcch--hhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHH--HHHhcC
Q 043204          307 YNEGR-IVEGDKVLDEMRTKGFWPSL--VMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLK--GLCDAG  381 (504)
Q Consensus       307 ~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~  381 (504)
                      +-.|. -+++...+..+....- +..  ..--+|...+.-.|+.+....++..++...    +..+...+.-  ++...|
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~----~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ----HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS----CHHHHHHHHHHHHHHTTT
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC----cHHHHHHHHHHHHhhhCC
Confidence            22232 2345555555554321 111  111233444566778777777777634321    2223333333  344678


Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhh--HHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHH
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGET--YGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVM  459 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  459 (504)
                      +.+.+..+++.+...  ..|....  -.++.-+|+..|+.....+++..+.+.. ..+......+.-++...|+.+.+.+
T Consensus       539 ~~e~~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          539 RQELADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             CGGGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             ChHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            888888888888753  2222222  1234556788889887777888887642 2223333333335555677777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHhhc
Q 043204          460 WLEEMISQAKLPDISVWSSLVASVCCNTADLNVCRKTLEQLSS  502 (504)
Q Consensus       460 ~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  502 (504)
                      +++.+.+.+ .|....-..+.-+....|.-..++..++..+..
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            777665543 344433333333333344325677777777653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.26  E-value=0.035  Score=41.57  Aligned_cols=31  Identities=13%  Similarity=0.164  Sum_probs=12.3

Q ss_pred             ccHHHHHHHHHHHHhcC---ChhHHHHHHHHhhh
Q 043204           78 CKDSVFATAIRTYARAG---QLNEAVSLFKNLSQ  108 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~  108 (504)
                      ++..+...+.-++++++   ++++++.+|+.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~   63 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLP   63 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh
Confidence            33333333334444433   33344444444433

>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=96.04  E-value=0.12  Score=38.17  Aligned_cols=114  Identities=7%  Similarity=-0.099  Sum_probs=75.8

Q ss_pred             ccHHHHHHHHHHHHhcCCh------HHHHHHHHHHHHhcCCCCchh-hHHHHHHH------HhhcCcHHHHHHHHHHHHh
Q 043204          365 PTVRVYNILLKGLCDAGNS------AVAVMYLKKMSKQVGCVANGE-TYGILVDG------LCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       365 ~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~------~~~~g~~~~A~~~~~~~~~  431 (504)
                      -|..+|-..+...-+.|++      ++..++|++....  ++|+.. .|...+..      +...+++++|.++|+.+++
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~--~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA--LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH--SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc--CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3556777777666667777      7778888887764  556532 12221111      2344899999999999977


Q ss_pred             cCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 043204          432 RSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVAS  482 (504)
Q Consensus       432 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  482 (504)
                      ..-.. ...|-....--.+.|+.++|.+++.+....+-+ +...+...++.
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~~n  137 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIALRN  137 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHHHh
Confidence            53233 566666666667899999999999999966533 34555666665

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.94  E-value=0.053  Score=38.00  Aligned_cols=64  Identities=16%  Similarity=0.045  Sum_probs=33.2

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcCC------CCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGDS------CECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      ..+..+...+.+.+++..|..+|+...+..      -.+...++..+..++.+.|+++.|...+++..+.
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            334445555555555555555555544310      1234445555666666666666666666655543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.92  E-value=0.05  Score=38.09  Aligned_cols=63  Identities=11%  Similarity=0.083  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHhcC-----CCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHh
Q 043204          369 VYNILLKGLCDAGNSAVAVMYLKKMSKQVG-----CVANGETYGILVDGLCRDGRFLEASRVLEEMLI  431 (504)
Q Consensus       369 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  431 (504)
                      -+..+...+...|++..|...|+...+...     -.+...++..|..+|.+.|+++.|...++++.+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            344455555566666666666665554310     012234455555555555555555555555554

>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=95.90  E-value=0.076  Score=39.23  Aligned_cols=104  Identities=13%  Similarity=0.095  Sum_probs=71.1

Q ss_pred             CCCCchHHHHHHHhcCCh------hHHHHHHHHHHhcCCCCCcchhcHHHHHHH------HhccCChhHHHHHHHHhhcC
Q 043204            7 RLLTPTYLSQIIKKQKSP------LTALKIFKEAKEKYPNYRHNGPVYASMIGI------LSESNRITEMKEVIDQMKGD   74 (504)
Q Consensus         7 ~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~------~~~~~~~~~a~~~~~~~~~~   74 (504)
                      |..+|-..+..+-+.|++      ++.+++|+++....|.-+  ...|...+..      +...++.++|.++|+.+.+.
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k--~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDK--YGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGG--GTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccc--cccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            444566666777777888      888899998888755321  1122222211      22347888888888888765


Q ss_pred             CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCc
Q 043204           75 SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVN  113 (504)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  113 (504)
                      + +--...|......-.+.|+...|.+++......+..|
T Consensus        90 h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 C-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             C-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             h-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            3 3336667777777788899999999998888887766

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.82  E-value=0.45  Score=36.60  Aligned_cols=130  Identities=13%  Similarity=0.120  Sum_probs=93.9

Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR  166 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  166 (504)
                      .......|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+...          +..+.-.|.-.|+
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~   75 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGD   75 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTC
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCC
Confidence            34556789999999998776      3467899999999999999999999998852          2556666777899


Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHH
Q 043204          167 SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       167 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      .++..++-+.....|      -++.....+.-.|+++++.++|.+.       |..|..      +......|..+.|.+
T Consensus        76 ~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~-------~r~~eA------~~~A~t~g~~~~a~~  136 (177)
T 3mkq_B           76 VNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG-------GSLPLA------YAVAKANGDEAAASA  136 (177)
T ss_dssp             HHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT-------TCHHHH------HHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC-------CChHHH------HHHHHHcCcHHHHHH
Confidence            888877766665543      2666777778889999999998644       222211      111222466777877


Q ss_pred             HHHHH
Q 043204          247 ILEKI  251 (504)
Q Consensus       247 ~~~~~  251 (504)
                      +.+++
T Consensus       137 ~~~~~  141 (177)
T 3mkq_B          137 FLEQA  141 (177)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            77665

>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=95.79  E-value=0.052  Score=45.57  Aligned_cols=91  Identities=8%  Similarity=0.128  Sum_probs=69.2

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc-----cCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc-CChh
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSE-----SNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA-GQLN   97 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~   97 (504)
                      ...|...++++.+.+|.. .+...|..+...|..     .|+.++|.+.|++..+.+..-+..++......+++. |+.+
T Consensus       179 l~~A~a~lerAleLDP~~-~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSY-QEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTH-HHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHHhCCCc-ccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            456788888888886642 245678888888888     489999999999988876222477777778888774 8899


Q ss_pred             HHHHHHHHhhhCCCC--ccH
Q 043204           98 EAVSLFKNLSQFNCV--NWT  115 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~--~~~  115 (504)
                      .+.+.+++.....+.  |+.
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHHHcCCCCCCCCh
Confidence            999999988887766  653

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.31  E-value=1.7  Score=39.82  Aligned_cols=101  Identities=15%  Similarity=0.101  Sum_probs=66.7

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhhhC--CCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC--H
Q 043204          153 SLNLLMDVLCQCRRSDLALHVFQEMDFQ--GCYPD---RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED--I  225 (504)
Q Consensus       153 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~  225 (504)
                      ....|...|...|++.+|.+++..+...  |.-..   ...+...++.|...+++.+|..++.++..........|+  .
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            3455777788888888888888887642  21111   134566677888888999988888876433333333333  2


Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      ..+...+..+...+++.+|.+.|.++..
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3456666777777888888877777654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.92  E-value=0.29  Score=35.18  Aligned_cols=18  Identities=17%  Similarity=0.224  Sum_probs=6.9

Q ss_pred             HHhcCChhHHHHHHHHhh
Q 043204           90 YARAGQLNEAVSLFKNLS  107 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~  107 (504)
                      +.+.|++++|.+.++.+.
T Consensus        84 ~yklg~Y~~A~~~~~~lL  101 (126)
T 1nzn_A           84 NYRLKEYEKALKYVRGLL  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            333333333333333333

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.60  E-value=0.35  Score=34.78  Aligned_cols=86  Identities=14%  Similarity=0.032  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHH---HHHHHHHHHhcCcCC--CcchHHHHHHHHHccCCHHHH
Q 043204          383 SAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLE---ASRVLEEMLIRSYWP--CVETYNVLIRGLCSIGKQYEA  457 (504)
Q Consensus       383 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a  457 (504)
                      ...+.+-|...... +. ++..+-..+..++++..+...   +..++++....+ .|  .....-.|.-++.+.|++++|
T Consensus        17 l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            33444445544443 32 555555556666666665544   666666666543 12  233344455577777777777


Q ss_pred             HHHHHHHHHcCCCCCH
Q 043204          458 VMWLEEMISQAKLPDI  473 (504)
Q Consensus       458 ~~~~~~~~~~~~~p~~  473 (504)
                      .++++.+++.  .|+.
T Consensus        94 ~~~~~~lL~~--eP~n  107 (126)
T 1nzn_A           94 LKYVRGLLQT--EPQN  107 (126)
T ss_dssp             HHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHh--CCCC
Confidence            7777777743  4544

>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=94.45  E-value=2.3  Score=38.15  Aligned_cols=75  Identities=12%  Similarity=-0.030  Sum_probs=60.0

Q ss_pred             HHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH-----HcCCCCCHHHHHHHH
Q 043204          406 YGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI-----SQAKLPDISVWSSLV  480 (504)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~~~ll  480 (504)
                      ...++..+...|++++|...++.+.... +.+...|..++.++.+.|+..+|++.|++..     +.|+.|+..+-...-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~  252 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  252 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            3556777888999999999999888753 4567789999999999999999999998876     359999887655444


Q ss_pred             H
Q 043204          481 A  481 (504)
Q Consensus       481 ~  481 (504)
                      .
T Consensus       253 ~  253 (388)
T 2ff4_A          253 R  253 (388)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.10  E-value=1.2  Score=32.34  Aligned_cols=140  Identities=12%  Similarity=0.127  Sum_probs=89.1

Q ss_pred             HhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHH
Q 043204           91 ARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLA  170 (504)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  170 (504)
                      .-.|..++..++..+.....   +..-||-+|--....-+-+-..++++.+..-.++              ..+|+....
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHHH
Confidence            44577777777777665532   1334455555555555666666666666443222              234555555


Q ss_pred             HHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHH
Q 043204          171 LHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEK  250 (504)
Q Consensus       171 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  250 (504)
                      ...+-.+-     .+...+...+......|+-|+-.+++..+    .. ..+|++...-.+..+|.+.|+..++.+++.+
T Consensus        81 i~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~----l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~  150 (172)
T 1wy6_A           81 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREI----LK-NNEVSASILVAIANALRRVGDERDATTLLIE  150 (172)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHH----C---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHH----hc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            55554443     24455666777788888888888887764    22 4566777888888888888888888888888


Q ss_pred             HHHcCCC
Q 043204          251 ILRKGLK  257 (504)
Q Consensus       251 ~~~~~~~  257 (504)
                      ..+.|++
T Consensus       151 AC~kG~k  157 (172)
T 1wy6_A          151 ACKKGEK  157 (172)
T ss_dssp             HHHTTCH
T ss_pred             HHHhhhH
Confidence            8888764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.86  E-value=3.2  Score=43.41  Aligned_cols=51  Identities=8%  Similarity=-0.061  Sum_probs=25.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHh
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQM   71 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   71 (504)
                      ++..+...+.++.|.++..+..+       +...--.+..++...|++++|.+.|++.
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~~~-------~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWLNS-------DPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHSCC-------CHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHhhhHHHHHHHhhhccC-------CcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            34444455555555554433321       2222233445566666666666666554

>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=92.65  E-value=0.33  Score=43.64  Aligned_cols=70  Identities=6%  Similarity=0.136  Sum_probs=59.4

Q ss_pred             cHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhh-----hCCCCccHHH
Q 043204           47 VYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLS-----QFNCVNWTQS  117 (504)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  117 (504)
                      +...++..+...|++.++...++.+.... +.+...+..+|.++.+.|+..+|++.|+...     +.|+.|...+
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            45677888889999999999999988777 7788899999999999999999999999765     4588887654

>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=92.61  E-value=1.3  Score=30.01  Aligned_cols=49  Identities=14%  Similarity=0.269  Sum_probs=33.5

Q ss_pred             ChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh
Q 043204           60 RITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (504)
                      +.-+..+-+..+...++.|++.+..+.+++|.+.+++..|.++|+-++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4445666666666666677777777777777777777777777776654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.34  E-value=0.74  Score=44.94  Aligned_cols=126  Identities=9%  Similarity=0.037  Sum_probs=73.6

Q ss_pred             HHHHHHHhccCC-hhHHHHHHHHhhcCCCCccHHH-H-HHHHHHHHhcC-ChhHHHHHHHHhhhC------CCC-cc---
Q 043204           49 ASMIGILSESNR-ITEMKEVIDQMKGDSCECKDSV-F-ATAIRTYARAG-QLNEAVSLFKNLSQF------NCV-NW---  114 (504)
Q Consensus        49 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~-~-~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~-~~---  114 (504)
                      ..++..+...++ .+.|..+|+++.+..  |...+ + ..++..+...+ +--+|.+++.+..+.      ... .+   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            445555555666 477999999988775  33333 2 23333333332 222355555443321      111 11   


Q ss_pred             -------HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhh
Q 043204          115 -------TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMD  178 (504)
Q Consensus       115 -------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  178 (504)
                             ......-.+.+...|+++.|+.+-++...-  .+.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                   111222234556678888888888887654  23356788888888888888888888887775

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.21  E-value=6.8  Score=35.84  Aligned_cols=63  Identities=21%  Similarity=0.169  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC---HHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          189 YHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED---IVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       189 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      ...|...+...|++.+|..++..+...  ..+....   ...+...++.|...+++.+|..++.++..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~E--t~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~  205 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVE--TYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILK  205 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH--HHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            356778889999999999999998532  2222211   34667778889999999999999888753

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.59  E-value=8.3  Score=40.39  Aligned_cols=146  Identities=14%  Similarity=0.103  Sum_probs=79.7

Q ss_pred             HHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC----CCC-------------
Q 043204           50 SMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQF----NCV-------------  112 (504)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-------------  112 (504)
                      .++..+...+..+.+.++..-..     .++...-.+.+++...|++++|...|.+....    +..             
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            45555666677776666554432     23333345567778888888888888764210    000             


Q ss_pred             -----ccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCC-cch--HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCC
Q 043204          113 -----NWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEV-KSR--IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYP  184 (504)
Q Consensus       113 -----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  184 (504)
                           .-..-|..++..+-+.+.++.+.+.-+......+. .++  ...|..+.+.+...|++++|...+-.+.....  
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--
Confidence                 01123556666666666666666555544332111 111  22466666777777777777777766655432  


Q ss_pred             CHhhHHHHHHHHHhcCCH
Q 043204          185 DRESYHILMKGLCNDRRL  202 (504)
Q Consensus       185 ~~~~~~~l~~~~~~~~~~  202 (504)
                      -......|+..++..|..
T Consensus       970 r~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHhCCCh
Confidence            234455555555544443

>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=91.14  E-value=2.5  Score=28.70  Aligned_cols=62  Identities=8%  Similarity=-0.010  Sum_probs=46.6

Q ss_pred             ChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHH
Q 043204           95 QLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLM  158 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  158 (504)
                      |.-+..+-++.+...+..|++.+..+.+++|-+.+++..|.++|+.++.+-+..  ..+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHH
Confidence            445677778888888888999999999999999999999999998887654333  23454444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.60  E-value=2.4  Score=41.50  Aligned_cols=127  Identities=14%  Similarity=0.034  Sum_probs=78.3

Q ss_pred             HHHHHHHHhcCC-hhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHhhc-------C-CCCcch---
Q 043204           84 ATAIRTYARAGQ-LNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKES-KLEAAHILFLRSCY-------G-WEVKSR---  150 (504)
Q Consensus        84 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~-------~-~~~~~~---  150 (504)
                      ..++..+...++ .+.|..+|+.+.+.+..........++..+...+ +--+|.+++.+..+       . .....+   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            444555555566 5889999999988764443333334444433333 22334444443321       1 000000   


Q ss_pred             -----HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043204          151 -----IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPD-RESYHILMKGLCNDRRLNEATHLLYSM  212 (504)
Q Consensus       151 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  212 (504)
                           ......=...+...|+++.|+++-++....  .|+ -.+|..|..+|...|+++.|+-.++.+
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                 011122234566789999999999998876  454 678999999999999999999998876

>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=90.42  E-value=3.5  Score=29.82  Aligned_cols=43  Identities=14%  Similarity=0.038  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          314 EGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       314 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      .++.+++.+.+.+..-....+-.|.-++.+.|++++|.+..+.
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~  103 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDT  103 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            4444444444433111222233333444455555555554444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.27  E-value=2.1  Score=39.03  Aligned_cols=99  Identities=8%  Similarity=-0.062  Sum_probs=56.2

Q ss_pred             hcHHHHHHHHhccCChhHHHHHHHHhhcC--CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh---CCCCccHHH--H
Q 043204           46 PVYASMIGILSESNRITEMKEVIDQMKGD--SCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ---FNCVNWTQS--F  118 (504)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~--~  118 (504)
                      .++..+...+.+.|+++.|.++|.++...  +...-...+...++.+...+++..+...++....   .+..++...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            35666777777777777777777776643  2233445567777777777777777777776542   222222111  0


Q ss_pred             HHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204          119 NTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus       119 ~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      ..-...+...+++..|...|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            11111223456777776666665433

>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=89.50  E-value=15  Score=35.15  Aligned_cols=331  Identities=9%  Similarity=-0.006  Sum_probs=162.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHH
Q 043204           82 VFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVL  161 (504)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  161 (504)
                      .|.....+ .+.|++..+..+...+....+.|. ..|..+.... .....++....+.+..   +.+.....-+..+..+
T Consensus         9 ~~~~a~~a-~~~~~~~~~~~l~~~l~~~pL~~y-l~y~~l~~~l-~~~~~~ev~~Fl~~~~---~~p~~~~Lr~~~l~~l   82 (618)
T 1qsa_A            9 RYAQIKQA-WDNRQMDVVEQMMPGLKDYPLYPY-LEYRQITDDL-MNQPAVTVTNFVRANP---TLPPARTLQSRFVNEL   82 (618)
T ss_dssp             HHHHHHHH-HHTTCHHHHHHHSGGGTTSTTHHH-HHHHHHHHTG-GGCCHHHHHHHHHHCT---TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHCCCHHHHHHHHHhhcCCCcHHH-HHHHHHHhCc-ccCCHHHHHHHHHHCC---CChhHHHHHHHHHHHH
Confidence            34444444 345778777777666654433332 2333333222 1123445555544432   2333333445556667


Q ss_pred             hhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCch
Q 043204          162 CQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKI  241 (504)
Q Consensus       162 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  241 (504)
                      .+.+++...+.++..     .+.+...-.....+....|+..+|......+.   .....  ....+..++..+.+.|.+
T Consensus        83 ~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW---~~~~~--~p~~c~~l~~~~~~~g~l  152 (618)
T 1qsa_A           83 ARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELW---LTGKS--QPNACDKLFSVWRASGKQ  152 (618)
T ss_dssp             HHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHH---SCSSC--CCTHHHHHHHHHHHTTCS
T ss_pred             HhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH---hCCCC--CcHHHHHHHHHHHHCCCC
Confidence            777777776664443     12344444455666677787777777666653   22222  334566777777766654


Q ss_pred             hH--HHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc-CChhHHHHH
Q 043204          242 QD--AMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE-GRIVEGDKV  318 (504)
Q Consensus       242 ~~--a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~  318 (504)
                      ..  ...=++.+...                    |+...|..+...+     .++..   .+...+... .+...+...
T Consensus       153 t~~~~~~R~~~al~~--------------------~~~~~a~~l~~~l-----~~~~~---~~a~~~~al~~~p~~~~~~  204 (618)
T 1qsa_A          153 DPLAYLERIRLAMKA--------------------GNTGLVTVLAGQM-----PADYQ---TIASAIISLANNPNTVLTF  204 (618)
T ss_dssp             CHHHHHHHHHHHHHT--------------------TCHHHHHHHHHTC-----CGGGH---HHHHHHHHHHHCGGGHHHH
T ss_pred             CHHHHHHHHHHHHHC--------------------CCHHHHHHHHHhC-----CHHHH---HHHHHHHHHHhChHhHHHH
Confidence            33  22222222222                    3344444433222     12221   122222111 222222222


Q ss_pred             HHHHHHCCCCcchh---hHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHH--HHHHHHHHHHhcCChHHHHHHHHHH
Q 043204          319 LDEMRTKGFWPSLV---MYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVR--VYNILLKGLCDAGNSAVAVMYLKKM  393 (504)
Q Consensus       319 ~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~  393 (504)
                      ...   .  .++..   .+...+.-+.+ .+.+.|...+...-......+...  ....+.......+...++...+...
T Consensus       205 ~~~---~--~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~  278 (618)
T 1qsa_A          205 ART---T--GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDA  278 (618)
T ss_dssp             HHH---S--CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHH
T ss_pred             Hhc---c--CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhc
Confidence            211   1  12222   11122222333 377888888887333333322222  1222222333344355666666665


Q ss_pred             HHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          394 SKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       394 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                      ...   .++.....-.+....+.|+++.|...|+.|..... ......--+.+++...|+.++|..+|+++.+
T Consensus       279 ~~~---~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~-~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          279 IMR---SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHT---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccc---CCChHHHHHHHHHHHHCCCHHHHHHHHHHcccccc-ccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            433   23333344455555677999999999988866321 1122223345577788999999999999873

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.19  E-value=3.2  Score=31.42  Aligned_cols=65  Identities=14%  Similarity=0.056  Sum_probs=42.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCcch-------hhHHHHHHHHhcCCCHHHHHHHHHHHHhcC
Q 043204          297 ASYSAMAIDLYNEGRIVEGDKVLDEMRTKG-FWPSL-------VMYEAKLAALFKDGMVDEALEVIEEEMVKG  361 (504)
Q Consensus       297 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  361 (504)
                      ..+-.-+..+...+.++.|+-+.+.+.... ..|+.       .++..+.+++...+++..|...|++++...
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~   93 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQK   93 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            344455667777788888887777654421 11221       245667788888899999988888755443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.88  E-value=6.9  Score=32.45  Aligned_cols=53  Identities=11%  Similarity=0.075  Sum_probs=27.9

Q ss_pred             HhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhh
Q 043204           55 LSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (504)
                      +.+.|+++++++....-++.. |-|...-..++..++-.|+++.|.+-++...+
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            344555555555555555444 44555555555555555555555555554444

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.14  E-value=4.4  Score=30.65  Aligned_cols=64  Identities=3%  Similarity=-0.198  Sum_probs=43.5

Q ss_pred             CCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcch-------hcHHHHHHHHhccCChhHHHHHHHHhh
Q 043204            8 LLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNG-------PVYASMIGILSESNRITEMKEVIDQMK   72 (504)
Q Consensus         8 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (504)
                      ...+-.-++.+...|.++.|+-+.+.+.... +..|+.       .++..+.+++...+++..|...|++..
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~-~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLS-NNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhh-cCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3444455778888888998888887765542 112221       245667788888899999998888854

>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=88.10  E-value=5.9  Score=28.66  Aligned_cols=45  Identities=9%  Similarity=-0.039  Sum_probs=17.8

Q ss_pred             HHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           98 EAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      .++.+++++.+.+.......+-.|.-++.+.|+++.|.+..+.+.
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL  105 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  105 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444433321122222333334444444444444444443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=88.00  E-value=6  Score=28.59  Aligned_cols=49  Identities=10%  Similarity=0.010  Sum_probs=34.7

Q ss_pred             hhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           96 LNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      .-+..+-++.+...++.|++.+..+.+++|-+.+++..|.++|+.++.+
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3345566666667777777777777777777777777777777776654

>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=87.32  E-value=6.6  Score=28.37  Aligned_cols=62  Identities=18%  Similarity=0.143  Sum_probs=39.4

Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHH
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLI  445 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  445 (504)
                      |.-+..+-++.+... .+.|++.+..+.+++|.+.+++..|.++|+-.+.+- .+...+|..++
T Consensus        68 D~wElrrglN~l~~~-DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGY-DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTS-SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            334455555555544 667777777777777777777777777777776652 23344565555

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.27  E-value=13  Score=33.79  Aligned_cols=61  Identities=8%  Similarity=-0.104  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhhCC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           82 VFATAIRTYARAGQLNEAVSLFKNLSQFN--CVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      +...+...|.+.|+++.|.+.|.++....  ...-...+-.+++.+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            34556666666666666666666665421  12223455555666666666666666555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=84.89  E-value=3.3  Score=34.31  Aligned_cols=58  Identities=17%  Similarity=0.124  Sum_probs=52.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDS   75 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (504)
                      +..+.+.|++++|++....-.+..|.   |...-..++..++-.|++++|.+-++...+..
T Consensus         4 ~~~ll~~g~L~~al~~~~~~VR~~P~---da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~   61 (273)
T 1zbp_A            4 WKNALSEGQLQQALELLIEAIKASPK---DASLRSSFIELLCIDGDFERADEQLMQSIKLF   61 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            34567899999999999999999888   99999999999999999999999999888764

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.63  E-value=11  Score=27.66  Aligned_cols=63  Identities=14%  Similarity=0.037  Sum_probs=28.3

Q ss_pred             CChhhHHHHHHHHHhc---CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          294 PSLASYSAMAIDLYNE---GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       294 ~~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      |+..+--....++.++   .+..+++.+++.+...+..-.....-.|.-++.+.|++++|.+..+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~  102 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDT  102 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3443333333444444   23334555555555433221222233344455555555555555555

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.36  E-value=22  Score=30.79  Aligned_cols=142  Identities=10%  Similarity=-0.004  Sum_probs=67.8

Q ss_pred             HHhccCChhHHHHHH----HHhhcCCCCccHHHHHHHHHHHHhcCChhHH-HHHHHHh----hhCC--CCccHHHHHHHH
Q 043204           54 ILSESNRITEMKEVI----DQMKGDSCECKDSVFATAIRTYARAGQLNEA-VSLFKNL----SQFN--CVNWTQSFNTLL  122 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~----~~~~--~~~~~~~~~~ll  122 (504)
                      .+.+.|+...|.++-    +...+.++++|......++..+.....-+-. .++.+.+    .+.|  ..-++.....+.
T Consensus        64 ~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig  143 (336)
T 3lpz_A           64 TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVG  143 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Confidence            344555555444443    4444556666666666666666554432111 1222222    2212  223445556666


Q ss_pred             HHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043204          123 KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRL  202 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  202 (504)
                      ..|.+.+++.+|...|-  .   +..++...+..++.-+...+...              .+|...-..++. |.-.++.
T Consensus       144 ~~~~~e~~~~~Ae~H~i--l---g~~~s~~~~a~mL~ew~~~~~~~--------------e~dlfiaRaVL~-yL~l~n~  203 (336)
T 3lpz_A          144 TLYVEEGEFEAAEKHLV--L---GTKESPEVLARMEYEWYKQDESH--------------TAPLYCARAVLP-YLLVANV  203 (336)
T ss_dssp             HHHHHTTCHHHHHHHHT--T---SCTTHHHHHHHHHHHHHHTSCGG--------------GHHHHHHHHHHH-HHHTTCH
T ss_pred             HHHHccCCHHHHHHHHH--h---cCCchHHHHHHHHHHHHHhcCCc--------------cHHHHHHHHHHH-HHHhCCH
Confidence            66777777777766662  1   12223344444443333332211              112222222333 5566788


Q ss_pred             HHHHHHHHHHHHH
Q 043204          203 NEATHLLYSMFWR  215 (504)
Q Consensus       203 ~~a~~~~~~~~~~  215 (504)
                      ..|..+++.....
T Consensus       204 ~~A~~~~~~f~~~  216 (336)
T 3lpz_A          204 RAANTAYRIFTSA  216 (336)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888877766543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=83.05  E-value=21  Score=30.52  Aligned_cols=175  Identities=7%  Similarity=0.033  Sum_probs=86.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFA  234 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  234 (504)
                      .++..-|.+.+++++|.+++..-..               .+.+.|+...|-++-..+.+...+.+.+++......++..
T Consensus        37 Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l  101 (312)
T 2wpv_A           37 RTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRL  101 (312)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            3444456666777777766543321               2344466555555544444444666677776666666655


Q ss_pred             HHhcCchh-HHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCC
Q 043204          235 LCDQGKIQ-DAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRG--GIPSLASYSAMAIDLYNEGR  311 (504)
Q Consensus       235 ~~~~g~~~-~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~  311 (504)
                      +.....-+ .-.++++.+++-                                ..+.+  ..-++.....+...|.+.++
T Consensus       102 ~~~~p~~~~~r~~fi~~ai~W--------------------------------S~~~g~~~~Gdp~LH~~~a~~~~~e~~  149 (312)
T 2wpv_A          102 IAELDPSEPNLKDVITGMNNW--------------------------------SIKFSEYKFGDPYLHNTIGSKLLEGDF  149 (312)
T ss_dssp             HTTCCTTCTTHHHHHHHHHHH--------------------------------HHHTSSCTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHCCCCCchHHHHHHHHHHH--------------------------------HhhcCCCCCCCHHHHHHHHHHHhhcCC
Confidence            54432211 112222322221                                01111  11255666667777788888


Q ss_pred             hhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcC---CCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHH
Q 043204          312 IVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKD---GMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVM  388 (504)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  388 (504)
                      +.+|...|-    .|-.-+...+..++.-+...   |...+               ++...-..+ --|...|+...|..
T Consensus       150 ~~~A~~H~i----~~~~~s~~~~a~~l~~w~~~~~~~~~~e---------------~dlf~~RaV-L~yL~l~n~~~A~~  209 (312)
T 2wpv_A          150 VYEAERYFM----LGTHDSMIKYVDLLWDWLCQVDDIEDST---------------VAEFFSRLV-FNYLFISNISFAHE  209 (312)
T ss_dssp             HHHHHHHHH----TSCHHHHHHHHHHHHHHHHHTTCCCHHH---------------HHHHHHHHH-HHHHHTTBHHHHHH
T ss_pred             HHHHHHHHH----hCCCccHHHHHHHHHHHHHhcCCCCcch---------------HHHHHHHHH-HHHHHhcCHHHHHH
Confidence            888777663    11111234444443332222   22222               122222222 23556788888888


Q ss_pred             HHHHHHHh
Q 043204          389 YLKKMSKQ  396 (504)
Q Consensus       389 ~~~~~~~~  396 (504)
                      +++...+.
T Consensus       210 ~~~~f~~~  217 (312)
T 2wpv_A          210 SKDIFLER  217 (312)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88876543

>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=82.50  E-value=8.8  Score=30.18  Aligned_cols=55  Identities=24%  Similarity=0.117  Sum_probs=33.4

Q ss_pred             CChHHHHHHHHHHHHhcCCCCc-hhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCC
Q 043204          381 GNSAVAVMYLKKMSKQVGCVAN-GETYGILVDGLCRDGRFLEASRVLEEMLIRSYWP  436 (504)
Q Consensus       381 ~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  436 (504)
                      ++...+.++|..|..+ ++--. ...|......+...|++++|.++|+.-++.+-.|
T Consensus        93 ~~~~~p~~if~~L~~~-~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           93 NNFHESENTFKYMFNK-GIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TCHHHHHHHHHHHHHH-TSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cccCCHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3355666667766666 54332 3455666666666677777777777666655444

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.34  E-value=15  Score=26.97  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=11.4

Q ss_pred             HHHHHHccCCHHHHHHHHHHHH
Q 043204          444 LIRGLCSIGKQYEAVMWLEEMI  465 (504)
Q Consensus       444 l~~~~~~~g~~~~a~~~~~~~~  465 (504)
                      +.-++.+.|++++|.++.+.++
T Consensus        83 LAvg~ykl~~Y~~Ar~y~d~lL  104 (144)
T 1y8m_A           83 LTIGCYKLGEYSMAKRYVDTLF  104 (144)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Confidence            3334555555555555555555

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	504
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	99.72
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.36
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.33
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.31
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.3
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.27
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.24
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.17
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.09
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.0
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.7
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.7
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.69
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.64
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.64
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.6
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.52
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.52
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.44
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.43
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.4
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.36
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.35
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.21
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.2
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.2
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.19
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.15
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.12
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.07
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.07
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.04
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.03
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.01
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.01
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.96
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.9
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.84
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.75
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.74
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.52
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.49
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.44
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.4
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.38
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.76
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.7
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.32
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.18
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.81
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.49
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.38
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.21
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.13
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.99
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	81.74

>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=6.8e-23  Score=186.55  Aligned_cols=381  Identities=15%  Similarity=0.053  Sum_probs=221.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      +...+.+.|++++|++.|+++.+..|+   +..++..+..++.+.|++++|...|+++.+.. |.+..++..+..+|.+.
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~   80 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPD---NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKER   80 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhh
Confidence            456677889999999999999998887   78888889999999999999999999988876 56677888889999999


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHH
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHV  173 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  173 (504)
                      |++++|+..+....+..... ..............+....+.............  ...............+....+...
T Consensus        81 g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  157 (388)
T d1w3ba_          81 GQLQEAIEHYRHALRLKPDF-IDGYINLAAALVAAGDMEGAVQAYVSALQYNPD--LYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             TCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT--CTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             cccccccccccccccccccc-ccccccccccccccccccccccccccccccccc--cccccccccccccccchhhhhHHH
Confidence            99999999998887765433 333333333344444444443333333222111  222333344445555666666666


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Q 043204          174 FQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILR  253 (504)
Q Consensus       174 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  253 (504)
                      +....... +-+...+..+...+...|++++|...+++.    ..... -+...+..+...+...|++++|...++....
T Consensus       158 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a----l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  231 (388)
T d1w3ba_         158 YLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKA----VTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH----HHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHH----HHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHH
Confidence            55555432 123445555556666666666666666655    22211 1345555566666666666666666665554


Q ss_pred             cCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhh
Q 043204          254 KGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVM  333 (504)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  333 (504)
                      .+.                                     .+...+..+...+.+.|++++|+..|++..+..+. +..+
T Consensus       232 ~~~-------------------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  273 (388)
T d1w3ba_         232 LSP-------------------------------------NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDA  273 (388)
T ss_dssp             HCT-------------------------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHH
T ss_pred             Hhh-------------------------------------hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHH
Confidence            421                                     13344444455555556666666666655554322 3445


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC-chhhHHHHHHH
Q 043204          334 YEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVA-NGETYGILVDG  412 (504)
Q Consensus       334 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  412 (504)
                      +..+...+...|++++|.+.++......  +.+...+..+...+...|++++|++.|++..+.   .| +..++..+..+
T Consensus       274 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~  348 (388)
T d1w3ba_         274 YCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASV  348 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            5555555555555555555555533332  334444555555555555555555555555432   22 23344555555


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccC
Q 043204          413 LCRDGRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIG  452 (504)
Q Consensus       413 ~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  452 (504)
                      |.+.|++++|.+.|++..+..  |+ ...|..+..+|.+.|
T Consensus       349 ~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         349 LQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHTTTCCHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC
Confidence            555555555555555555432  32 334445555544444

>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=1.9e-21  Score=176.82  Aligned_cols=382  Identities=15%  Similarity=0.049  Sum_probs=283.7

Q ss_pred             HHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcch
Q 043204           51 MIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESK  130 (504)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  130 (504)
                      +...+.+.|++++|.+.++++.+.. |-+..++..+..+|.+.|++++|+..|+...+.++ .+..++..+...+.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHhhhhcc
Confidence            4456677888888888888888765 55677788888888888888888888888877653 345677788888888888


Q ss_pred             HHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043204          131 LEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLY  210 (504)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  210 (504)
                      +++|...+..........  ...+..........+....+............ ................+....+...+.
T Consensus        83 ~~~A~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDF--IDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             cccccccccccccccccc--cccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHH
Confidence            888888888776543322  22333344444445555555555544444322 233444445555666777777777766


Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHc
Q 043204          211 SMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIR  290 (504)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  290 (504)
                      ..    .... +.+...+..+...+...|+++.|...+++..+...                                  
T Consensus       160 ~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p----------------------------------  200 (388)
T d1w3ba_         160 KA----IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP----------------------------------  200 (388)
T ss_dssp             HH----HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT----------------------------------
T ss_pred             Hh----hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc----------------------------------
Confidence            65    2222 22456677777777778888888888877766531                                  


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHH
Q 043204          291 GGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVY  370 (504)
Q Consensus       291 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  370 (504)
                         -+...+..+...+...|++++|...+++....+.. +...+..+...+.+.|++++|...|++++...  +-+..++
T Consensus       201 ---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~  274 (388)
T d1w3ba_         201 ---NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAY  274 (388)
T ss_dssp             ---TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--SSCHHHH
T ss_pred             ---ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHH
Confidence               14567777888889999999999999999887543 66778889999999999999999999966654  3456788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHc
Q 043204          371 NILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCS  450 (504)
Q Consensus       371 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  450 (504)
                      ..+..++...|++++|.+.++.....  .+.+...+..+...+...|++++|.+.+++..+.. +-+..+|..+..+|.+
T Consensus       275 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~  351 (388)
T d1w3ba_         275 CNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQ  351 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            88999999999999999999998875  45567788899999999999999999999998753 3346678889999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCC
Q 043204          451 IGKQYEAVMWLEEMISQAKLPD-ISVWSSLVASVCCNT  487 (504)
Q Consensus       451 ~g~~~~a~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~~  487 (504)
                      .|++++|.+.|++..+  +.|+ ...+..+..+|.+.|
T Consensus       352 ~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         352 QGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             TTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTC
T ss_pred             cCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcC
Confidence            9999999999999984  5676 456777777655443

>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=99.72  E-value=4.2e-15  Score=130.78  Aligned_cols=232  Identities=11%  Similarity=0.025  Sum_probs=186.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .....+.+.|++++|+..|+++.+.+|.   +..+|..+..++...|++++|...|++..+.. +-+...+..+...|..
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~---~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK---HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccc
Confidence            3566788999999999999999999887   88899999999999999999999999999876 5677889999999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCcc--------------HHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHH
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNW--------------TQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLM  158 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  158 (504)
                      .|++++|.+.++..........              .......+..+...+...+|...|.+.....+..++...+..+.
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            9999999999998876432210              00111223344566778888888888765544445667788888


Q ss_pred             HHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhc
Q 043204          159 DVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQ  238 (504)
Q Consensus       159 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  238 (504)
                      ..+...|++++|...|++...... -+...|..+..++...|++++|.+.|++.    .+.. +-+..++..+..+|.+.
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~a----l~~~-p~~~~a~~~lg~~~~~~  253 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRA----LELQ-PGYIRSRYNLGISCINL  253 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHH----HHHh-hccHHHHHHHHHHHHHC
Confidence            899999999999999999877642 25778888999999999999999999988    4432 22577888899999999


Q ss_pred             CchhHHHHHHHHHHHc
Q 043204          239 GKIQDAMQILEKILRK  254 (504)
Q Consensus       239 g~~~~a~~~~~~~~~~  254 (504)
                      |++++|++.|++.++.
T Consensus       254 g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         254 GAHREAVEHFLEALNM  269 (323)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999998774

>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=99.62  E-value=5.4e-13  Score=117.00  Aligned_cols=93  Identities=15%  Similarity=0.027  Sum_probs=74.6

Q ss_pred             HHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHH
Q 043204          156 LLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFAL  235 (504)
Q Consensus       156 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  235 (504)
                      .....+.+.|++++|.+.|+++.+... -+..+|..+..++...|++++|...|++.    .+... -+...+..+..+|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~A~~~~~~a----l~~~p-~~~~~~~~la~~~   97 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRC----LELKP-DNQTALMALAVSF   97 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHhh----hcccc-ccccccccccccc
Confidence            355667889999999999999988742 25778888888999999999999999888    34332 2567888888889


Q ss_pred             HhcCchhHHHHHHHHHHHc
Q 043204          236 CDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       236 ~~~g~~~~a~~~~~~~~~~  254 (504)
                      ...|++++|.+.+++....
T Consensus        98 ~~~~~~~~A~~~~~~~~~~  116 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRY  116 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHT
T ss_pred             cccccccccccchhhHHHh
Confidence            9999999999999888765

>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=99.36  E-value=1e-10  Score=101.01  Aligned_cols=214  Identities=10%  Similarity=0.028  Sum_probs=167.4

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccC-ChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESN-RITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      ++.+...+.+.+.+++|+++++++.+.+|.   +..+|+....++...| ++++|...++...+.. +-+..+|..+...
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~---~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELNAA---NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHCCC---ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            456667788899999999999999999988   8899999999988876 5899999999999887 6778889999999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCC---
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRR---  166 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  166 (504)
                      +.+.|++++|+..++.+.+.++ .+..+|..+...+...|++++|+..++++....  +.+...|+.+...+.+.+.   
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998764 347899999999999999999999999998653  2245677776666655544   


Q ss_pred             ---HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCC-cCHHHHHHHHHHHHh
Q 043204          167 ---SDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSG-EDIVIYRTLLFALCD  237 (504)
Q Consensus       167 ---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~  237 (504)
                         +++|++.+....+... .+...|+.+...+... ..+++.+.++...    +.... .+...+..++..|..
T Consensus       199 ~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~----~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDR-GLSKYPNLLNQLL----DLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTT-CGGGCHHHHHHHH----HHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHhc-ChHHHHHHHHHHH----HhCCCcCCHHHHHHHHHHHHH
Confidence               6788888888877642 3667777776655444 4577777777663    32222 245566666666644

>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=99.33  E-value=5.4e-10  Score=96.41  Aligned_cols=222  Identities=8%  Similarity=0.044  Sum_probs=172.2

Q ss_pred             hhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhcc--------------CChhHHHHHHHHhhcCCCCccHHHHHHHHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRHNGPVYASMIGILSES--------------NRITEMKEVIDQMKGDSCECKDSVFATAIRT   89 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (504)
                      .+.+..+|++++...|.   +...|...+..+.+.              +..++|..+|++..+...+.+...|...+..
T Consensus        32 ~~Rv~~vyerAl~~~~~---~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~  108 (308)
T d2onda1          32 TKRVMFAYEQCLLVLGH---HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            45688899999998765   667776666554332              3457889999999876556666778888999


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHH-HhhcCCHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDV-LCQCRRSD  168 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~  168 (504)
                      ..+.|+++.|..+|+.+.+........+|...+....+.|+.+.|..+|+++....+..+.  .|...... +...|+.+
T Consensus       109 ~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~--~~~~~a~~e~~~~~~~~  186 (308)
T d2onda1         109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHH--VYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTH--HHHHHHHHHHHTSCCHH
T ss_pred             HHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHH--HHHHHHHHHHHhccCHH
Confidence            9999999999999999988765555667899999999999999999999999876544443  33333322 34468999


Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC--HHHHHHHHHHHHhcCchhHHHH
Q 043204          169 LALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED--IVIYRTLLFALCDQGKIQDAMQ  246 (504)
Q Consensus       169 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~  246 (504)
                      .|..+|+.+.+.. +.+...|...+....+.|+++.|..+|++..   ...+..|+  ...|...+..-...|+.+.+.+
T Consensus       187 ~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai---~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~  262 (308)
T d2onda1         187 VAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVL---TSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHH---HSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHH---HhCCCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999998763 3467788999999999999999999999883   22333433  4578888888788899999999


Q ss_pred             HHHHHHHc
Q 043204          247 ILEKILRK  254 (504)
Q Consensus       247 ~~~~~~~~  254 (504)
                      +++++.+.
T Consensus       263 ~~~r~~~~  270 (308)
T d2onda1         263 VEKRRFTA  270 (308)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988775

>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=99.31  E-value=3.1e-09  Score=93.94  Aligned_cols=278  Identities=15%  Similarity=-0.015  Sum_probs=153.2

Q ss_pred             HHHHHhcCChhHHHHHHHHhhhCCCCcc----HHHHHHHHHHHHhcchHHHHHHHHHHhhcCC----CCcchHHHHHHHH
Q 043204           87 IRTYARAGQLNEAVSLFKNLSQFNCVNW----TQSFNTLLKEMVKESKLEAAHILFLRSCYGW----EVKSRIQSLNLLM  158 (504)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~  158 (504)
                      ...+...|++++|++++++..+.....+    ..++..+...+...|++++|...|++.....    ........+..+.
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            3444555666666666665544322111    1234455555666666666666665543211    1111233455566


Q ss_pred             HHHhhcCCHHHHHHHHHHhhh----CCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Q 043204          159 DVLCQCRRSDLALHVFQEMDF----QGCYPD---RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTL  231 (504)
Q Consensus       159 ~~~~~~~~~~~a~~~~~~~~~----~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l  231 (504)
                      ..+...|++..+...+.....    .+....   ...+..+...+...|+++.+...+..........+.......+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            677778888888887776543    111111   1345556677888999999999998885544444444455666777


Q ss_pred             HHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 043204          232 LFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNEGR  311 (504)
Q Consensus       232 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  311 (504)
                      ...+...++...+...+.+.............                              .....+......+...|+
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~  228 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSD------------------------------WISNANKVRVIYWQMTGD  228 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHH------------------------------HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCc------------------------------hHHHHHHHHHHHHHhccc
Confidence            77788888888888888776553211000000                              011233344445556677


Q ss_pred             hhHHHHHHHHHHHCCCCc---chhhHHHHHHHHhcCCCHHHHHHHHHHHHh---cCCCCcc-HHHHHHHHHHHHhcCChH
Q 043204          312 IVEGDKVLDEMRTKGFWP---SLVMYEAKLAALFKDGMVDEALEVIEEEMV---KGTFVPT-VRVYNILLKGLCDAGNSA  384 (504)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~-~~~~~~l~~~~~~~~~~~  384 (504)
                      .+.|...+..........   ....+..+...+...|++++|...+++++.   ..+..|+ ...+..+..+|...|+++
T Consensus       229 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  308 (366)
T d1hz4a_         229 KAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKS  308 (366)
T ss_dssp             HHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHH
Confidence            777777776655432221   123344456666677777777776665332   1122222 234455555666666666


Q ss_pred             HHHHHHHHHH
Q 043204          385 VAVMYLKKMS  394 (504)
Q Consensus       385 ~a~~~~~~~~  394 (504)
                      +|.+.+++..
T Consensus       309 ~A~~~l~~Al  318 (366)
T d1hz4a_         309 DAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666665543

>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=99.30  E-value=4.5e-09  Score=92.86  Aligned_cols=308  Identities=14%  Similarity=-0.003  Sum_probs=195.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcC-HHHHH
Q 043204          155 NLLMDVLCQCRRSDLALHVFQEMDFQGCYPD----RESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGED-IVIYR  229 (504)
Q Consensus       155 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~  229 (504)
                      ......+...|++++|++++++..+.....+    ...+..+..++...|++++|...|++........+..+. ...+.
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            3345567788999999999988876532111    235666777888899999999999888544333332222 34556


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHh
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIP-SLASYSAMAIDLYN  308 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~  308 (504)
                      .+...+...|++..+...+.+..........                              ...+ ....+..+...+..
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~------------------------------~~~~~~~~~~~~la~~~~~  145 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHL------------------------------EQLPMHEFLVRIRAQLLWA  145 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC------------------------------TTSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhccc------------------------------chhhHHHHHHHHHHHHHHH
Confidence            6777888899999999988876643110000                              0001 11234445566777


Q ss_pred             cCChhHHHHHHHHHHHCCC----CcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcC---CCCc--cHHHHHHHHHHHHh
Q 043204          309 EGRIVEGDKVLDEMRTKGF----WPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKG---TFVP--TVRVYNILLKGLCD  379 (504)
Q Consensus       309 ~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~~~~~~~l~~~~~~  379 (504)
                      .|+++.+...+........    ......+......+...++...+...+.+.....   +..+  ....+..+...+..
T Consensus       146 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (366)
T d1hz4a_         146 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  225 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHh
Confidence            7888888888887766422    2233445556666777888888887776533321   1111  12345556667788


Q ss_pred             cCChHHHHHHHHHHHHhcCCCCc---hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc----CcCCC-cchHHHHHHHHHcc
Q 043204          380 AGNSAVAVMYLKKMSKQVGCVAN---GETYGILVDGLCRDGRFLEASRVLEEMLIR----SYWPC-VETYNVLIRGLCSI  451 (504)
Q Consensus       380 ~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~  451 (504)
                      .|+++.|...++..... ....+   ...+..+..++...|++++|...+++....    +..|+ ...+..+..+|.+.
T Consensus       226 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  304 (366)
T d1hz4a_         226 TGDKAAAANWLRHTAKP-EFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQA  304 (366)
T ss_dssp             TTCHHHHHHHHHHSCCC-CCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHC
Confidence            89999999988887653 21111   234556778889999999999999887642    33332 45677778889999


Q ss_pred             CCHHHHHHHHHHHHHc----CCCC----CHHHHHHHHHHHhcCCCchhHHH
Q 043204          452 GKQYEAVMWLEEMISQ----AKLP----DISVWSSLVASVCCNTADLNVCR  494 (504)
Q Consensus       452 g~~~~a~~~~~~~~~~----~~~p----~~~~~~~ll~~~~~~~~~~~~a~  494 (504)
                      |++++|.+.+++..+.    |...    ....+..++..+...+. .+++.
T Consensus       305 g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-l~e~e  354 (366)
T d1hz4a_         305 GRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNT-LPELE  354 (366)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTC-SCHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCC-ChHHH
Confidence            9999999999887642    3221    22344556666666665 55554

>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=99.27  E-value=2e-09  Score=92.78  Aligned_cols=189  Identities=12%  Similarity=0.025  Sum_probs=119.3

Q ss_pred             CHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHH
Q 043204          166 RSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAM  245 (504)
Q Consensus       166 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  245 (504)
                      ..++|..+|++..+...+.+...|...+......|+++.|..+|+++    ..........+|...+....+.|+.+.|.
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~----l~~~~~~~~~~w~~~~~~~~~~~~~~~ar  154 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRL----LAIEDIDPTLVYIQYMKFARRAEGIKSGR  154 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HTSSSSCTHHHHHHHHHHHHHHHCHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH----HHHhcCChHHHHHHHHHHHHHcCChHHHH
Confidence            45667777777766544445556666677777777788887777776    44433333456777777777777777777


Q ss_pred             HHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH-HHhcCChhHHHHHHHHHHH
Q 043204          246 QILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID-LYNEGRIVEGDKVLDEMRT  324 (504)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~  324 (504)
                      ++|+.+.+....                                     +...|...... +...|+.+.|..+|+.+.+
T Consensus       155 ~i~~~al~~~~~-------------------------------------~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~  197 (308)
T d2onda1         155 MIFKKAREDART-------------------------------------RHHVYVTAALMEYYCSKDKSVAFKIFELGLK  197 (308)
T ss_dssp             HHHHHHHTSTTC-------------------------------------CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-------------------------------------cHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            777777654321                                     22222222221 2234677777777777776


Q ss_pred             CCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCcc--HHHHHHHHHHHHhcCChHHHHHHHHHHHHh
Q 043204          325 KGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPT--VRVYNILLKGLCDAGNSAVAVMYLKKMSKQ  396 (504)
Q Consensus       325 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  396 (504)
                      .. +.+...|...++.+.+.|+++.|..+|++++...+..|.  ...|...+..-...|+.+.+..+++++.+.
T Consensus       198 ~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         198 KY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            53 225666777777777777777777777776666554443  345666666666677777777777777655

>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=99.27  E-value=4.2e-09  Score=90.69  Aligned_cols=217  Identities=10%  Similarity=0.044  Sum_probs=140.2

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhhCCCCcCHHHHH
Q 043204          151 IQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDR-RLNEATHLLYSMFWRISQKGSGEDIVIYR  229 (504)
Q Consensus       151 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  229 (504)
                      ...++.+...+.+.+.+++|+++++++.+.+.. +...|+....++...| ++++|+..++..    ...... +..+|.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~a----l~~~p~-~~~a~~  116 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAI----IEEQPK-NYQVWH  116 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHH----HHHCTT-CHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHH----HHHHHh-hhhHHH
Confidence            345566666677778888888888888776422 4556676666666655 478888888777    343332 577788


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 043204          230 TLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAIDLYNE  309 (504)
Q Consensus       230 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  309 (504)
                      .+...+.+.|++++|++.++++++....                                     +...|..+...+...
T Consensus       117 ~~~~~~~~l~~~~eAl~~~~kal~~dp~-------------------------------------n~~a~~~~~~~~~~~  159 (315)
T d2h6fa1         117 HRRVLVEWLRDPSQELEFIADILNQDAK-------------------------------------NYHAWQHRQWVIQEF  159 (315)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTT-------------------------------------CHHHHHHHHHHHHHH
T ss_pred             HHhHHHHhhccHHHHHHHHhhhhhhhhc-------------------------------------chHHHHHHHHHHHHH
Confidence            8888888888888888888888776422                                     566777777777777


Q ss_pred             CChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCC------HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204          310 GRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGM------VDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNS  383 (504)
Q Consensus       310 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (504)
                      |++++|+..++++.+.++. +...|+.+...+.+.+.      +++|++.+.+++...  +.+...|..+...+.. ...
T Consensus       160 ~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~-~~~  235 (315)
T d2h6fa1         160 KLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQD-RGL  235 (315)
T ss_dssp             TCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTT-TCG
T ss_pred             HhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHh-cCh
Confidence            8888888888888776543 55566665555544443      567777777756554  3355566655554433 445


Q ss_pred             HHHHHHHHHHHHhcCCCCchhhHHHHHHHHh
Q 043204          384 AVAVMYLKKMSKQVGCVANGETYGILVDGLC  414 (504)
Q Consensus       384 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  414 (504)
                      +++.+.++...+......+...+..++..|.
T Consensus       236 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         236 SKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             GGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            6777777776654122223344555555543

>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=99.24  E-value=1.8e-10  Score=97.04  Aligned_cols=218  Identities=7%  Similarity=-0.072  Sum_probs=113.7

Q ss_pred             hhHHHHHHHHHHhcCCCCCc-chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHH
Q 043204           24 PLTALKIFKEAKEKYPNYRH-NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSL  102 (504)
Q Consensus        24 ~~~A~~~~~~~~~~~p~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (504)
                      .+.|+.-+++.....+-..+ ...+|..+..+|.+.|++++|.+.|++..+.. |.++.+|..+..++.+.|++++|+..
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            44555555555554321111 23355566666777777777777777776665 55566677777777777777777777


Q ss_pred             HHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC
Q 043204          103 FKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC  182 (504)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  182 (504)
                      |++..+.++ .+..++..+...+...|++++|...|+......+.  +......+...+.+.+..+.+..+........ 
T Consensus        94 ~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  169 (259)
T d1xnfa_          94 FDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN--DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD-  169 (259)
T ss_dssp             HHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC-
T ss_pred             hhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc--cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc-
Confidence            777666542 23455666666677777777777777666544221  22222223333444444444444444444321 


Q ss_pred             CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          183 YPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGE-DIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       183 ~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                       ++...++ ++..+..    .+..+.+...+...    ..  ..| ...+|..+...|...|++++|.+.|++.+..
T Consensus       170 -~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~----~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         170 -KEQWGWN-IVEFYLGNISEQTLMERLKADATDN----TS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             -CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSH----HH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             -hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHh----hh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence             1111222 2222221    11222222222211    00  011 2345566677777777777777777777664

>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=99.17  E-value=1.1e-10  Score=102.29  Aligned_cols=141  Identities=7%  Similarity=-0.040  Sum_probs=62.6

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHh----------ccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILS----------ESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      ..++|+++++++.+.+|+   +...|+..-..+.          ..|++++|+.+++...+.. +.+...|..+..++..
T Consensus        44 ~~~~al~~~~~~l~~~P~---~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          44 LDESVLELTSQILGANPD---FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             CSHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            346677777777766665   4444443332222          1223455555555555443 3344445444444444


Q ss_pred             cC--ChhHHHHHHHHhhhCCCCccHHHH-HHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           93 AG--QLNEAVSLFKNLSQFNCVNWTQSF-NTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        93 ~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      .+  ++++|...++.+.+.+... ...+ ..+...+...+..+.|+..++.+....  +-+...|+.+...+.+.|++++
T Consensus       120 ~~~~~~~~a~~~~~~al~~~~~~-~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~--p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         120 LPEPNWARELELCARFLEADERN-FHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             hccccHHHHHHHHHHHHhhCchh-hhhhhhHHHHHHHhccccHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCHHH
Confidence            33  2455555555554443222 2222 222233334444444444444443321  1123334444444444444443


Q ss_pred             H
Q 043204          170 A  170 (504)
Q Consensus       170 a  170 (504)
                      |
T Consensus       197 A  197 (334)
T d1dcea1         197 S  197 (334)
T ss_dssp             S
T ss_pred             H
Confidence            3

>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=99.09  E-value=4.4e-09  Score=88.20  Aligned_cols=201  Identities=10%  Similarity=-0.088  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 043204          226 VIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAID  305 (504)
Q Consensus       226 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  305 (504)
                      .+|..+..+|.+.|++++|.+.|++.++....                                     +..+|..+..+
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-------------------------------------~~~a~~~lg~~   80 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPD-------------------------------------MPEVFNYLGIY   80 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------------------------------------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-------------------------------------CHHHHhhhchH
Confidence            45556666777777777777777777665321                                     45566666677


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHH
Q 043204          306 LYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAV  385 (504)
Q Consensus       306 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (504)
                      +.+.|++++|+..|+++.+..+. +..++..+..+|...|++++|...|+..+...  +.+......+..++.+.+..+.
T Consensus        81 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~  157 (259)
T d1xnfa_          81 LTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQA  157 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHH
T ss_pred             HHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHH
Confidence            77777777777777777765433 45566667777777777777777777755543  2233333333334444444444


Q ss_pred             HHHHHHHHHHhcCCCCchhhHHHHHHHHhhcC----cHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHH
Q 043204          386 AVMYLKKMSKQVGCVANGETYGILVDGLCRDG----RFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWL  461 (504)
Q Consensus       386 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g----~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  461 (504)
                      +..+.......   .++...++ ++..+....    ..+.+...+....... +-...+|..+...|...|++++|.+.|
T Consensus       158 ~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~  232 (259)
T d1xnfa_         158 KEVLKQHFEKS---DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLA-EHLSETNFYLGKYYLSLGDLDSATALF  232 (259)
T ss_dssp             HHHHHHHHHHS---CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhhcc---chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcC-cccHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            44444443332   22222222 222222111    1222222221111110 111345666777888888888888888


Q ss_pred             HHHHHcCCCCCH
Q 043204          462 EEMISQAKLPDI  473 (504)
Q Consensus       462 ~~~~~~~~~p~~  473 (504)
                      ++..+  ..|+.
T Consensus       233 ~~al~--~~p~~  242 (259)
T d1xnfa_         233 KLAVA--NNVHN  242 (259)
T ss_dssp             HHHHT--TCCTT
T ss_pred             HHHHH--cCCCC
Confidence            88874  34553

>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=99.00  E-value=5.6e-09  Score=91.19  Aligned_cols=219  Identities=6%  Similarity=-0.108  Sum_probs=123.9

Q ss_pred             HhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc--CCHHHHHHHHHHhhhCCCCCCHhhHHH-HHHHHHhcCCH
Q 043204          126 VKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC--RRSDLALHVFQEMDFQGCYPDRESYHI-LMKGLCNDRRL  202 (504)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~~~~  202 (504)
                      ...|.+++|+..++......  +.+...|..+..++...  +++++|...++++.+... ++...+.. ....+...+.+
T Consensus        84 ~~~~~~~~al~~~~~~l~~~--pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHhC--CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhcccc
Confidence            34456677777777776542  22344555555555444  357788888888776532 24444433 33556667888


Q ss_pred             HHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHH
Q 043204          203 NEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKS  282 (504)
Q Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  282 (504)
                      +.|+..++.+    ...... +...|..+..++.+.|++++|...+....+.                            
T Consensus       161 ~~Al~~~~~~----i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~----------------------------  207 (334)
T d1dcea1         161 AEELAFTDSL----ITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV----------------------------  207 (334)
T ss_dssp             HHHHHHHHTT----TTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH----------------------------
T ss_pred             HHHHHHHHHH----HHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh----------------------------
Confidence            8888887766    444332 5677777777777777776654433322221                            


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Q 043204          283 LINEALIRGGIPSLASYSAMAIDLYNEGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVKGT  362 (504)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  362 (504)
                       +         |+   .......+...+..+.+...+........ ++...+..+...+...++.++|...+.+..... 
T Consensus       208 -~---------~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  272 (334)
T d1dcea1         208 -L---------LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCKELQELEPEN-  272 (334)
T ss_dssp             -H---------HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-
T ss_pred             -H---------HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-
Confidence             0         00   01112223344556666666666655432 244445555556666666777776666522221 


Q ss_pred             CCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHh
Q 043204          363 FVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQ  396 (504)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  396 (504)
                       +.+..++..+..++...|++++|.+.++.+.+.
T Consensus       273 -p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         273 -KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             -HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             -chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence             223445566666666777777777777776653

>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=98.82  E-value=1.6e-07  Score=79.79  Aligned_cols=175  Identities=10%  Similarity=-0.031  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhhhC----C-CCCCHhhHHHHHHHHH-hcCCHHHHHHHHHHHHHHHhhCCCCcC-
Q 043204          152 QSLNLLMDVLCQCRRSDLALHVFQEMDFQ----G-CYPDRESYHILMKGLC-NDRRLNEATHLLYSMFWRISQKGSGED-  224 (504)
Q Consensus       152 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~p~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~-  224 (504)
                      .+|..+..+|.+.|++++|.+.+++..+.    | ......++..+...|. ..|++++|.+.+++........+..+. 
T Consensus        78 ~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~  157 (290)
T d1qqea_          78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhh
Confidence            34455555566666666666665544331    1 0011233444555554 458899999998887544333333322 


Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 043204          225 IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKSLINEALIRGGIPSLASYSAMAI  304 (504)
Q Consensus       225 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  304 (504)
                      ..++..+...+...|++++|.+.|+++.......+.... .                             -...+...+.
T Consensus       158 ~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~-~-----------------------------~~~~~~~~~~  207 (290)
T d1qqea_         158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW-S-----------------------------LKDYFLKKGL  207 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG-G-----------------------------HHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhh-h-----------------------------HHHHHHHHHH
Confidence            356788899999999999999999998875432111000 0                             0112333344


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCC-cc---hhhHHHHHHHHhc--CCCHHHHHHHHHH
Q 043204          305 DLYNEGRIVEGDKVLDEMRTKGFW-PS---LVMYEAKLAALFK--DGMVDEALEVIEE  356 (504)
Q Consensus       305 ~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~~~~~~a~~~~~~  356 (504)
                      .+...|+++.|...+++..+..+. ++   ......++.++..  .+.+++|+..|++
T Consensus       208 ~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         208 CQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             HHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            556678888888888877665321 11   1233445555443  2346666665554

>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=98.77  E-value=7.9e-08  Score=68.68  Aligned_cols=93  Identities=11%  Similarity=0.019  Sum_probs=77.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      -...+.+.|++++|+..|+++.+..|.   +...|..+..++...|++++|+..++...+.+ +.+...|..+..++...
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~---~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPH---NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCc---chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHc
Confidence            355677888888888888888888777   77888888888888888888888888888877 67777888888888888


Q ss_pred             CChhHHHHHHHHhhhCC
Q 043204           94 GQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~  110 (504)
                      |++++|+..|+...+..
T Consensus        85 ~~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             TCHHHHHHHHHHHHTTC
T ss_pred             cCHHHHHHHHHHHHHhC
Confidence            88888888888888765

>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=7.6e-07  Score=75.40  Aligned_cols=201  Identities=9%  Similarity=0.020  Sum_probs=115.9

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCC---CcchhcHHHHHHHHhccCChhHHHHHHHHhhcC----CCCcc--HH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNY---RHNGPVYASMIGILSESNRITEMKEVIDQMKGD----SCECK--DS   81 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~   81 (504)
                      |......|...|++++|.+.|.++.+..+..   ..-..+|..+..+|.+.|++++|.+.+++..+.    + .+.  ..
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~-~~~~~~~  118 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRG-QFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-CHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcc-cchhHHH
Confidence            5566677777888888888888776642110   112346777777888888888888887765532    2 111  23


Q ss_pred             HHHHHHHHHHh-cCChhHHHHHHHHhhhC----CCCc-cHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch----H
Q 043204           82 VFATAIRTYAR-AGQLNEAVSLFKNLSQF----NCVN-WTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR----I  151 (504)
Q Consensus        82 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~  151 (504)
                      ++..+...|.. .|+++.|++.|++..+.    +..+ -..++..+...+...|++++|...|+++.......+.    .
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            35555555643 57888888888765431    2111 1345667777788888888888888776543222111    1


Q ss_pred             -HHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCC-CC---HhhHHHHHHHHHh--cCCHHHHHHHHHHH
Q 043204          152 -QSLNLLMDVLCQCRRSDLALHVFQEMDFQGCY-PD---RESYHILMKGLCN--DRRLNEATHLLYSM  212 (504)
Q Consensus       152 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~  212 (504)
                       ..+...+..+...|+++.|.+.+++..+.... ++   ......++.++..  .+.+++|+..|+.+
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence             12333444566678888888888877665311 11   1233445554443  23456666555443

>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=98.70  E-value=2.3e-07  Score=70.56  Aligned_cols=94  Identities=12%  Similarity=0.028  Sum_probs=80.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .....|.+.|++++|+..|+++.+.+|.   +...|..+..++...|++++|...|+...+.. +.+..+|..+..++..
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPS---NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchh---hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            3456677889999999999999998887   88888888899999999999999999988876 6677788888899999


Q ss_pred             cCChhHHHHHHHHhhhCC
Q 043204           93 AGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~  110 (504)
                      .|++++|...|++..+..
T Consensus        91 ~g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK  108 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHHcC
Confidence            999999999998888765

>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=98.69  E-value=5.7e-07  Score=70.58  Aligned_cols=124  Identities=7%  Similarity=-0.033  Sum_probs=65.4

Q ss_pred             HHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH
Q 043204           54 ILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA  133 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  133 (504)
                      .+...|+++.|++.|+.+.    +|++.+|..+..+|...|++++|++.|++..+.+. .....|..+..++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccHHH
Confidence            3444555555555554432    34444555555555555555555555555554442 224455555555555555555


Q ss_pred             HHHHHHHhhcCCC-------------Ccc-hHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC
Q 043204          134 AHILFLRSCYGWE-------------VKS-RIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC  182 (504)
Q Consensus       134 a~~~~~~~~~~~~-------------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  182 (504)
                      |...|++......             ... ...++..+..++.+.|++++|.+.|+...+...
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            5555554432100             011 123455666777888888888888887776533

>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=98.65  E-value=5.3e-07  Score=70.76  Aligned_cols=123  Identities=9%  Similarity=0.013  Sum_probs=102.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG   94 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (504)
                      ...+...|++++|++.|+.+..      |+..+|..+..++...|++++|.+.|++..+.+ +.+...|..+..++.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~------~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQD------PHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSS------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhcCC------CCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhc
Confidence            4567789999999999987532      367789999999999999999999999999988 777888999999999999


Q ss_pred             ChhHHHHHHHHhhhCCC--------------Cc-cHHHHHHHHHHHHhcchHHHHHHHHHHhhcC
Q 043204           95 QLNEAVSLFKNLSQFNC--------------VN-WTQSFNTLLKEMVKESKLEAAHILFLRSCYG  144 (504)
Q Consensus        95 ~~~~a~~~~~~~~~~~~--------------~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  144 (504)
                      ++++|++.|+.......              .+ ...++..+..++.+.|++++|.+.|......
T Consensus        85 ~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999998754211              11 1356677888999999999999999988754

>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=98.64  E-value=1e-07  Score=67.37  Aligned_cols=90  Identities=12%  Similarity=0.019  Sum_probs=60.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .+...+.+.|++++|+..|+++.+..|.   +..+|..+..++.+.|++++|+..|++..+.. |.+..++..+...|..
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPE---REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccc---cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHH
Confidence            3455566677777777777777776665   66667777777777777777777777766665 5556666667777777


Q ss_pred             cCChhHHHHHHHHh
Q 043204           93 AGQLNEAVSLFKNL  106 (504)
Q Consensus        93 ~~~~~~a~~~~~~~  106 (504)
                      .|++++|++.|++.
T Consensus        97 ~g~~~~A~~~l~~~  110 (112)
T d1hxia_          97 EHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            77777777666653

>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=98.64  E-value=9.8e-08  Score=76.18  Aligned_cols=99  Identities=7%  Similarity=-0.080  Sum_probs=79.7

Q ss_pred             CCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHH
Q 043204            6 PRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFAT   85 (504)
Q Consensus         6 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (504)
                      |+..........|.+.|++++|+..|+++.+..|.   +...|..+..+|.+.|++++|+..|+...+.. |-+..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~---~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL---VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHH
Confidence            55556666777888888888888888888888776   77888888888888888888888888888776 556677888


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhh
Q 043204           86 AIRTYARAGQLNEAVSLFKNLSQ  108 (504)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~  108 (504)
                      +..+|...|++++|+..|+...+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888888888888888887654

>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=98.60  E-value=4.7e-07  Score=68.82  Aligned_cols=94  Identities=7%  Similarity=-0.010  Sum_probs=64.9

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhc
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKE  128 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (504)
                      ....+.|.+.|++++|...|++..+.. +.+...|..+..+|...|++++|...|+...+.+ +.+..+|..+..++...
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHc
Confidence            344556667777777777777777766 5566667777777777777777777777776655 23355666677777777


Q ss_pred             chHHHHHHHHHHhhcC
Q 043204          129 SKLEAAHILFLRSCYG  144 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~~  144 (504)
                      |++++|...+++....
T Consensus        92 g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          92 GKFRAALRDYETVVKV  107 (159)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            7777777777766654

>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=98.52  E-value=2e-06  Score=61.07  Aligned_cols=100  Identities=14%  Similarity=-0.019  Sum_probs=67.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCC
Q 043204          374 LKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGK  453 (504)
Q Consensus       374 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  453 (504)
                      ...+...|++++|+..|++..+.  -+.+...|..+..+|.+.|++++|...++...+.+ +.+...|..+..++...|+
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            44566777777777777777764  23345567777777777777777777777777654 4456667777777777777


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHH
Q 043204          454 QYEAVMWLEEMISQAKLPDISVWSS  478 (504)
Q Consensus       454 ~~~a~~~~~~~~~~~~~p~~~~~~~  478 (504)
                      +++|+..+++..+  ..|+...+..
T Consensus        87 ~~~A~~~~~~a~~--~~p~~~~~~~  109 (117)
T d1elwa_          87 FEEAKRTYEEGLK--HEANNPQLKE  109 (117)
T ss_dssp             HHHHHHHHHHHHT--TCTTCHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHH
Confidence            7777777777773  4555544433

>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=98.52  E-value=3.8e-05  Score=63.63  Aligned_cols=223  Identities=11%  Similarity=0.008  Sum_probs=151.3

Q ss_pred             CCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhc----cCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            9 LTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSE----SNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         9 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      ..+..|...+.+.+++++|++.|+++.+.  |   +..++..|...|..    ..+...|...++.....+   +.....
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~--g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDL--K---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34556777788899999999999999887  5   77777777777765    568889999999888766   333344


Q ss_pred             HHHHHHHh----cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHhhcCCCCcchHHHHHH
Q 043204           85 TAIRTYAR----AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK----ESKLEAAHILFLRSCYGWEVKSRIQSLNL  156 (504)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  156 (504)
                      .+...+..    ..+.+.|...++...+.+...   ....+...+..    ......+...+......    .+...+..
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~  147 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTI  147 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhh
Confidence            44444433    457788888888887776432   22333333332    34566677777665432    23455666


Q ss_pred             HHHHHhh----cCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHHHhhCCCCcCHHHH
Q 043204          157 LMDVLCQ----CRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCN----DRRLNEATHLLYSMFWRISQKGSGEDIVIY  228 (504)
Q Consensus       157 l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  228 (504)
                      |...|..    ..+...+...++...+.|   +......+...+..    ..+++.|..+|++.    .+.|   +...+
T Consensus       148 L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~a----a~~g---~~~a~  217 (265)
T d1ouva_         148 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKA----CELE---NGGGC  217 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHH----HHTT---CHHHH
T ss_pred             hhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhh----hccc---CHHHH
Confidence            7776664    466778888888877754   55666666555554    56888999999887    5555   45566


Q ss_pred             HHHHHHHHh----cCchhHHHHHHHHHHHcCC
Q 043204          229 RTLLFALCD----QGKIQDAMQILEKILRKGL  256 (504)
Q Consensus       229 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  256 (504)
                      ..|...|..    ..+.++|.++|++....|.
T Consensus       218 ~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         218 FNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            667776664    3368888888888887764

>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=98.44  E-value=0.00018  Score=59.36  Aligned_cols=49  Identities=14%  Similarity=-0.098  Sum_probs=22.2

Q ss_pred             CChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHHHHHHHHHHHhcC
Q 043204          381 GNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRFLEASRVLEEMLIRS  433 (504)
Q Consensus       381 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  433 (504)
                      .+++.|..+|....+. |   ++..+..|..+|.+    ..+.++|.+.|++..+.|
T Consensus       196 ~d~~~A~~~~~~aa~~-g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         196 KNFKEALARYSKACEL-E---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cchhhhhhhHhhhhcc-c---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            3455555555555443 2   22333334444432    224555555555555444

>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=98.43  E-value=1.4e-06  Score=62.13  Aligned_cols=96  Identities=9%  Similarity=-0.010  Sum_probs=76.1

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCCh---hHHHHHHHHhhcCCCCcc-HHHHHHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRI---TEMKEVIDQMKGDSCECK-DSVFATAI   87 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~-~~~~~~l~   87 (504)
                      ..++..+...+++++|.+.|++++...|.   +..++..+..++.+.++.   ++|+.+|+.+.+.+..|+ ..++..+.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~---~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV---SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC---CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC---CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            45677888888999999999999998776   888888888888775544   468888988887653333 24677888


Q ss_pred             HHHHhcCChhHHHHHHHHhhhCC
Q 043204           88 RTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      .+|.+.|++++|++.|+.+.+.+
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhC
Confidence            88999999999999999888765

>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=98.40  E-value=1.5e-06  Score=69.07  Aligned_cols=98  Identities=8%  Similarity=0.007  Sum_probs=67.4

Q ss_pred             cchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHH
Q 043204           43 HNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLL  122 (504)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (504)
                      |++..+......+.+.|++++|+..|++..+.. |.+..+|..+..+|.+.|+++.|+..|+...+.++ -+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHH
Confidence            456666666777777777777777777777665 55666677777777777777777777777766542 2355666666


Q ss_pred             HHHHhcchHHHHHHHHHHhh
Q 043204          123 KEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~  142 (504)
                      .+|.+.|++++|...|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            67777777777766666654

>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=98.36  E-value=2.2e-06  Score=60.28  Aligned_cols=92  Identities=9%  Similarity=-0.047  Sum_probs=66.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHh
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVK  127 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (504)
                      +-.+...+.+.|++++|...|++..+.. |-+..+|..+..++.+.|++++|+..|+...+.+ +.+..++..+...|..
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHH
Confidence            3445666777788888888888877766 5566777777778888888888888888777665 2345666777777777


Q ss_pred             cchHHHHHHHHHHh
Q 043204          128 ESKLEAAHILFLRS  141 (504)
Q Consensus       128 ~~~~~~a~~~~~~~  141 (504)
                      .|+.++|.+.+++.
T Consensus        97 ~g~~~~A~~~l~~~  110 (112)
T d1hxia_          97 EHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            77777777777664

>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=98.35  E-value=1.8e-06  Score=61.59  Aligned_cols=94  Identities=10%  Similarity=0.028  Sum_probs=55.4

Q ss_pred             HHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcC---ChhHHHHHHHHhhhCCCCcc-HHHHHHHHHH
Q 043204           49 ASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAG---QLNEAVSLFKNLSQFNCVNW-TQSFNTLLKE  124 (504)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~  124 (504)
                      ..+++.+...+++++|.+.|+.....+ +.+..++..+..++.+.+   ++++|+.+|+.+.+.+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            345566666666677777776666665 556666666666665543   33456666666665544333 2345555566


Q ss_pred             HHhcchHHHHHHHHHHhhc
Q 043204          125 MVKESKLEAAHILFLRSCY  143 (504)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~  143 (504)
                      |.+.|++++|++.|+++..
T Consensus        82 y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH
Confidence            6666666666666666554

>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=98.21  E-value=3.2e-05  Score=58.93  Aligned_cols=68  Identities=9%  Similarity=-0.106  Sum_probs=45.6

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISV  475 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  475 (504)
                      +|+.+..+|.+.|++++|...++..++.. +.++..|..+..+|...|++++|+..|++..+.  .|+...
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~  131 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKA  131 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHH
Confidence            45556667777777777777777777654 335666777777777777777777777777753  454433

>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=98.20  E-value=8.4e-06  Score=62.56  Aligned_cols=92  Identities=7%  Similarity=0.085  Sum_probs=53.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcch-------------------hcHHHHHHHHhccCChhHHHHHHHHhhcC
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNG-------------------PVYASMIGILSESNRITEMKEVIDQMKGD   74 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~-------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (504)
                      ........|++++|.+.|+.++..++|--...                   ..+..+...+.+.|++++|+..++.+.+.
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~   96 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE   96 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh
Confidence            34677789999999999999999876521110                   12344444445555555555555555544


Q ss_pred             CCCccHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 043204           75 SCECKDSVFATAIRTYARAGQLNEAVSLFKNL  106 (504)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (504)
                      . +-+...|..++.++.+.|+..+|++.|+++
T Consensus        97 ~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          97 H-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             S-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             C-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            4 444445555555555555555555555543

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=2e-05  Score=60.10  Aligned_cols=97  Identities=8%  Similarity=-0.070  Sum_probs=61.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc------------hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN------------GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD   80 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (504)
                      .....+.+.|++++|+..|+++.+..|.....            ..+|+.+..+|.+.|++++|+..++..++.. |.++
T Consensus        18 ~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~   96 (170)
T d1p5qa1          18 ERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNE   96 (170)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccch
Confidence            34557788999999999999998876532111            1234445555666666666666666666554 4455


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           81 SVFATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      .++..+..+|...|+++.|+..|+...+.+
T Consensus        97 ~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          97 KGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            556666666666666666666666665544

>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=98.19  E-value=6.3e-06  Score=59.51  Aligned_cols=94  Identities=18%  Similarity=0.192  Sum_probs=68.8

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH-------HHHH
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD-------SVFA   84 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~   84 (504)
                      ..+...+.+.|++++|+..|+++++.+|.   +..+|..+..+|.+.|++++|++.++++.+.. +.+.       .+|.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~---~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~   83 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPT---NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcc---cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34566777888888888888888888776   77788888888888888888888888877543 1111       2455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhC
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQF  109 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~  109 (504)
                      .+...+...+++++|++.|+.....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            6666677777888888888776544

>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=98.15  E-value=0.0015  Score=55.00  Aligned_cols=137  Identities=7%  Similarity=0.045  Sum_probs=77.5

Q ss_pred             CCCCCCchHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHH
Q 043204            5 WPRLLTPTYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFA   84 (504)
Q Consensus         5 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (504)
                      .|+...-..+...|-+.|.++.|..+|..+..           |..++..+.+.++++.|.+++.+..      +..+|.
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-----------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k   73 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----------FGRLASTLVHLGEYQAAVDGARKAN------STRTWK   73 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC-----------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-----------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHH
Confidence            34444445566777788888888888865532           5677777778888888777776442      455777


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhc
Q 043204           85 TAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQC  164 (504)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  164 (504)
                      .+...+.+......+     .+.......++.....++..|-..|.+++...+++......  .++...++-++..|++.
T Consensus        74 ~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~--~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          74 EVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST--TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC--ccchHHHHHHHHHHHHh
Confidence            777777776655443     12223333445555677777888888888888887765332  33445567777777765


Q ss_pred             C
Q 043204          165 R  165 (504)
Q Consensus       165 ~  165 (504)
                      +
T Consensus       147 ~  147 (336)
T d1b89a_         147 K  147 (336)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=98.12  E-value=3.1e-06  Score=69.57  Aligned_cols=123  Identities=11%  Similarity=-0.055  Sum_probs=71.4

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCCh
Q 043204           17 IIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQL   96 (504)
Q Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (504)
                      -..+.|++++|+..+++..+..|+   |...+..+...++..|++++|.+.|+...+.. +.+...+..+...+...+..
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~P~---d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKASPK---DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhcccc
Confidence            345678888888888888888877   88888888888888888888888888888765 33344444444444333333


Q ss_pred             hHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           97 NEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      +++..-.......+.++....+......+.+.|+.++|...++++..
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            32222111111111112222333334445555666666666655543

>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=98.07  E-value=7.6e-05  Score=56.64  Aligned_cols=69  Identities=9%  Similarity=-0.095  Sum_probs=49.1

Q ss_pred             hHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 043204          405 TYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVW  476 (504)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  476 (504)
                      +|..+..+|.+.|++++|...++...+.. +.+...|..+..++...|++++|.+.|+++.+.  .|+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~  134 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAA  134 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            45556677778888888888888877754 455677777777888888888888888887743  4554433

>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=98.07  E-value=1.9e-05  Score=56.91  Aligned_cols=95  Identities=13%  Similarity=0.128  Sum_probs=68.8

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCc---c---HHHHHHH
Q 043204           48 YASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVN---W---TQSFNTL  121 (504)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~---~~~~~~l  121 (504)
                      +-.+...+.+.|++++|++.|++..+.+ |.+..++..+..+|.+.|+++.|+..++.+.+.+...   .   ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            4566778888888888888888888876 6677788888888888888888888888876532111   1   2355566


Q ss_pred             HHHHHhcchHHHHHHHHHHhhc
Q 043204          122 LKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus       122 l~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      ...+...+++++|+..|++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            6666667777777777766543

>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=98.04  E-value=0.0001  Score=55.94  Aligned_cols=98  Identities=9%  Similarity=-0.013  Sum_probs=60.5

Q ss_pred             hHHHHHHHhcCChhHHHHHHHHHHhcCCCCCcc------------hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCcc
Q 043204           12 TYLSQIIKKQKSPLTALKIFKEAKEKYPNYRHN------------GPVYASMIGILSESNRITEMKEVIDQMKGDSCECK   79 (504)
Q Consensus        12 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   79 (504)
                      ......+.+.|++.+|+..|+++....|.....            ...|+.+..+|.+.|++++|+..++...+.. |.+
T Consensus        19 ~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~   97 (168)
T d1kt1a1          19 KEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SAN   97 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cch
Confidence            345667788999999999998887653321110            1123444555566666666666666666655 555


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 043204           80 DSVFATAIRTYARAGQLNEAVSLFKNLSQFN  110 (504)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (504)
                      ..+|..+..++...|++++|...|+...+.+
T Consensus        98 ~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          98 EKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            5566666666666666666666666666544

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.03  E-value=5.4e-05  Score=56.43  Aligned_cols=108  Identities=14%  Similarity=0.046  Sum_probs=54.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           13 YLSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        13 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      .-...+.+.|++.+|+..|+.+....|...........                  ....    .....+|..+..+|.+
T Consensus        22 ~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~------------------~~~~----~~~~~~~~Nla~~~~~   79 (153)
T d2fbna1          22 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL------------------DKKK----NIEISCNLNLATCYNK   79 (153)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH------------------HHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH------------------Hhhh----hHHHHHHhhHHHHHHH
Confidence            34456778899999999999888764432211100000                  0000    0011234445555555


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      .|++++|++.++...+.+ +.+..+|..+..++...|++++|...|++...
T Consensus        80 l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          80 NKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555443 22344555555555555555555555555543

>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=98.01  E-value=0.0029  Score=53.13  Aligned_cols=136  Identities=12%  Similarity=0.048  Sum_probs=70.4

Q ss_pred             ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHH
Q 043204           78 CKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLL  157 (504)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  157 (504)
                      ||..-...+...|.+.|.++.|..+|..+..         |..++..+.+.+++..|...+.+..       +..+|..+
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~   75 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEV   75 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHH
Confidence            3444445556666677777777777765432         2455566666677777666665442       33466666


Q ss_pred             HHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh
Q 043204          158 MDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCD  237 (504)
Q Consensus       158 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  237 (504)
                      ...+.+......+     .+.......++.....++..|-..|.+++...+++..    ... -..+...++.++..|++
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~----~~~-~~~~~~~~~~L~~lyak  145 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAA----LGL-ERAHMGMFTELAILYSK  145 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----TTS-TTCCHHHHHHHHHHHHT
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHH----HcC-CccchHHHHHHHHHHHH
Confidence            6666665544332     1222223345555566777777777777777777755    322 23456667777777777


Q ss_pred             cC
Q 043204          238 QG  239 (504)
Q Consensus       238 ~g  239 (504)
                      .+
T Consensus       146 ~~  147 (336)
T d1b89a_         146 FK  147 (336)
T ss_dssp             TC
T ss_pred             hC
Confidence            53

>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=98.01  E-value=4.8e-05  Score=57.93  Aligned_cols=107  Identities=7%  Similarity=-0.062  Sum_probs=52.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhc
Q 043204           14 LSQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARA   93 (504)
Q Consensus        14 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (504)
                      ....+...|++++|+..|+++.+..+.   ..        .   ......       ..... +.+...+..+..++.+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~---~~--------~---~~~~~~-------~~~~~-~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEG---SR--------A---AAEDAD-------GAKLQ-PVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHH---HH--------H---HSCHHH-------HGGGH-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhh---hh--------h---hhhhHH-------HHHhC-hhhHHHHHHHHHHHHhh
Confidence            345666788888888888877653110   00        0   000000       00000 12233444455555555


Q ss_pred             CChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhc
Q 043204           94 GQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCY  143 (504)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  143 (504)
                      |++++|+..++...+.++ .++.+|..+..++...|++++|+..|++..+
T Consensus        91 ~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            555555555555555442 2344555555555555555555555555544

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.96  E-value=9.5e-05  Score=55.02  Aligned_cols=75  Identities=15%  Similarity=-0.077  Sum_probs=58.6

Q ss_pred             hhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 043204          404 ETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSSLVA  481 (504)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  481 (504)
                      .+|..+..+|.+.|++++|.+.+++..+.+ +.+..+|..+..++...|++++|+..|++..+.  .|+.......+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~~~~l~  142 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYE  142 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            356678888899999999999999988864 446788888999999999999999999998864  466544443343

>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=97.93  E-value=6.4e-06  Score=75.36  Aligned_cols=209  Identities=5%  Similarity=-0.103  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccH-HHHHHHHHHHHhcCChhHHHHHHH
Q 043204           26 TALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKD-SVFATAIRTYARAGQLNEAVSLFK  104 (504)
Q Consensus        26 ~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~  104 (504)
                      +|.+.|+++.+..|+   ...++..+..++...+++++|   ++++...+  |+. ..++.. ..+. ...+..+.+.++
T Consensus         4 eA~q~~~qA~~l~p~---~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e-~~Lw-~~~y~~~ie~~r   73 (497)
T d1ya0a1           4 QSAQYLRQAEVLKAD---MTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVE-QDLW-NHAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHHHGG---GTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHH-HHHH-HHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCC---CHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHH-HHHH-HHHHHHHHHHHH
Confidence            688888888887655   455666677777777777765   66665442  221 111111 1111 112445666666


Q ss_pred             HhhhCCCCccHHHHHHHH--HHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCC
Q 043204          105 NLSQFNCVNWTQSFNTLL--KEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGC  182 (504)
Q Consensus       105 ~~~~~~~~~~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  182 (504)
                      ...+....++..-....+  ......+.++.|+..+......  .+++...+..+...+.+.|+.+.|...+....... 
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV--DLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI-  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------CCHHHHHH-
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--ChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC-
Confidence            655443333322111111  1122345555555555443321  12345556677777788888888887776655421 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHc
Q 043204          183 YPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILEKILRK  254 (504)
Q Consensus       183 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  254 (504)
                        ...++..+...+...|++++|...|++.    .+..+ -+...|+.|...+...|+..+|...|.+.+..
T Consensus       151 --~~~~~~~LG~l~~~~~~~~~A~~~y~~A----~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         151 --CQHCLVHLGDIARYRNQTSQAESYYRHA----AQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             --HHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS
T ss_pred             --HHHHHHHHHHHHHHcccHHHHHHHHHHH----HHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence              1346667777888888899998888887    34322 25678888888888888888888888888765

>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=97.90  E-value=0.00064  Score=51.73  Aligned_cols=71  Identities=13%  Similarity=-0.004  Sum_probs=49.2

Q ss_pred             hhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHH-----HcCCCCCHHH
Q 043204          404 ETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMI-----SQAKLPDISV  475 (504)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~  475 (504)
                      ..+..+..++.+.|++++|...++++.+.. +-+...|..++.+|.+.|+..+|++.|+++.     +.|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345666777777777777777777777653 3456667777777777777777777777763     3577777654

>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=97.84  E-value=3.1e-05  Score=70.63  Aligned_cols=226  Identities=12%  Similarity=0.017  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHHcCCCCCcchhhhhhccccCCCCChHHHHH
Q 043204          204 EATHLLYSMFWRISQKGSGED-IVIYRTLLFALCDQGKIQDAMQILEKILRKGLKAPKSRRHRIDLCPCNDGEDIEGAKS  282 (504)
Q Consensus       204 ~a~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  282 (504)
                      +|.+.|++.    ..  ++|+ ...+..+..++...+++++|   +++++..+.  ............+  ...+..+.+
T Consensus         4 eA~q~~~qA----~~--l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp--~~a~~~~~e~~Lw--~~~y~~~ie   70 (497)
T d1ya0a1           4 QSAQYLRQA----EV--LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDL--EYALDKKVEQDLW--NHAFKNQIT   70 (497)
T ss_dssp             HHHHHHHHH----HH--HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCH--HHHHHHTHHHHHH--HHHTHHHHH
T ss_pred             HHHHHHHHH----HH--cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcCh--hhHHHHhHHHHHH--HHHHHHHHH
Confidence            566777766    22  2233 33455566667777777655   566554321  1110000000000  001233444


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHh--cCChhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHHHHhc
Q 043204          283 LINEALIRGGIPSLASYSAMAIDLYN--EGRIVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEEEMVK  360 (504)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  360 (504)
                      .++...+....++.......+..+..  .+.++.++..+....+.. .++...+..+...+.+.|+.+.|...+......
T Consensus        71 ~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  149 (497)
T d1ya0a1          71 TLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY  149 (497)
T ss_dssp             HHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH
T ss_pred             HHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC
Confidence            55554444333333322222222211  234444444443333222 224555666777777778887777766653322


Q ss_pred             CCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcch
Q 043204          361 GTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVET  440 (504)
Q Consensus       361 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  440 (504)
                      .    ...++..+...+...|++++|...|++..+.  .+.+...|+.|...|...|+..+|...|.+..... +|-..+
T Consensus       150 ~----~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a  222 (497)
T d1ya0a1         150 I----CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAA  222 (497)
T ss_dssp             H----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHH
T ss_pred             C----HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHH
Confidence            1    1245666777778888888888888887764  22344678888888888888888888888887754 456666


Q ss_pred             HHHHHHHHHc
Q 043204          441 YNVLIRGLCS  450 (504)
Q Consensus       441 ~~~l~~~~~~  450 (504)
                      +..|...+.+
T Consensus       223 ~~nL~~~~~~  232 (497)
T d1ya0a1         223 STNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777666544

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.75  E-value=4.3e-05  Score=56.28  Aligned_cols=89  Identities=12%  Similarity=0.020  Sum_probs=66.9

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhcc----------CChhHHHHHHHHhhcCCCCccHHHHHHHH
Q 043204           18 IKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSES----------NRITEMKEVIDQMKGDSCECKDSVFATAI   87 (504)
Q Consensus        18 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (504)
                      |-+.+.+++|+..|+.+.+.+|.   +..++..+..++...          +.+++|+..|++..+.. |.+..+|..+.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~---~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPL---DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCc---chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHH
Confidence            45667799999999999999988   888998888888754          44577888888888876 66777888888


Q ss_pred             HHHHhcCC-----------hhHHHHHHHHhhhCC
Q 043204           88 RTYARAGQ-----------LNEAVSLFKNLSQFN  110 (504)
Q Consensus        88 ~~~~~~~~-----------~~~a~~~~~~~~~~~  110 (504)
                      .+|...|+           ++.|.+.|+...+..
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            87766543           455666666555443

>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=97.74  E-value=9.4e-05  Score=60.51  Aligned_cols=124  Identities=6%  Similarity=-0.055  Sum_probs=81.2

Q ss_pred             HHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHH
Q 043204           54 ILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEA  133 (504)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  133 (504)
                      -..+.|++++|+..+++..+.. |.|...+..+...++..|++++|.+.|+...+..+. +...+..+...+...+..++
T Consensus         5 ~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           5 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHH
Confidence            3457799999999999999887 778888999999999999999999999998876532 23344444444443344333


Q ss_pred             HHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          134 AHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      +..-..... ..+.+++...+......+...|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~-~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAK-VLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEE-CCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhh-cccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            322211111 1112233444444556667778888888888777664

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.52  E-value=0.0002  Score=52.59  Aligned_cols=75  Identities=13%  Similarity=0.059  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 043204          419 FLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIG-----------KQYEAVMWLEEMISQAKLPDISVWSSLVASVCCNT  487 (504)
Q Consensus       419 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~  487 (504)
                      +++|.+.|++..+.+ +.+..+|..+..+|...|           ++++|.+.|++..+  +.|+...+...+..+    
T Consensus        57 ~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~----  129 (145)
T d1zu2a1          57 IQEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT----  129 (145)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH----
Confidence            345555555555532 223444555555554432           35778888888874  467776666666542    


Q ss_pred             CchhHHHHHHHHhhcC
Q 043204          488 ADLNVCRKTLEQLSSC  503 (504)
Q Consensus       488 ~~~~~a~~~~~~~~~~  503 (504)
                         ..|.+++.+..++
T Consensus       130 ---~ka~~~~~e~~k~  142 (145)
T d1zu2a1         130 ---AKAPQLHAEAYKQ  142 (145)
T ss_dssp             ---HTHHHHHHHHHHS
T ss_pred             ---HHHHHHHHHHHHH
Confidence               3344555554443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.49  E-value=0.00022  Score=54.08  Aligned_cols=88  Identities=7%  Similarity=-0.065  Sum_probs=68.2

Q ss_pred             chhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHH
Q 043204           44 NGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLK  123 (504)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (504)
                      +...|..+..++.+.|++++|+..++.+.+.. +.++.+|..+..++...|+++.|+..|+...+..+ .+..+...+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            55677888888899999999999999998887 67778899999999999999999999998888653 34555666655


Q ss_pred             HHHhcchHHH
Q 043204          124 EMVKESKLEA  133 (504)
Q Consensus       124 ~~~~~~~~~~  133 (504)
                      ...+.....+
T Consensus       154 ~~~~l~~~~~  163 (169)
T d1ihga1         154 VKQKIKAQKD  163 (169)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5554444443

>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=97.44  E-value=0.0015  Score=48.49  Aligned_cols=93  Identities=14%  Similarity=0.045  Sum_probs=61.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHhcCCCCc----------hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc-----CcCCC-
Q 043204          374 LKGLCDAGNSAVAVMYLKKMSKQVGCVAN----------GETYGILVDGLCRDGRFLEASRVLEEMLIR-----SYWPC-  437 (504)
Q Consensus       374 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~-  437 (504)
                      ...+...|++++|++.|++..+...-.|+          ...|+.+..+|.+.|++++|.+.+++..+.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            33455667777777777777654222222          245677778888888888888888777652     11111 


Q ss_pred             ----cchHHHHHHHHHccCCHHHHHHHHHHHHH
Q 043204          438 ----VETYNVLIRGLCSIGKQYEAVMWLEEMIS  466 (504)
Q Consensus       438 ----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  466 (504)
                          ...|..+..+|...|++++|++.|++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                22456677888899999999999988774

>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=97.40  E-value=0.00071  Score=50.31  Aligned_cols=95  Identities=16%  Similarity=-0.018  Sum_probs=66.9

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhcCCCCcc----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHhc----CCCCc-
Q 043204          338 LAALFKDGMVDEALEVIEEEMVKGTFVPT----------VRVYNILLKGLCDAGNSAVAVMYLKKMSKQV----GCVAN-  402 (504)
Q Consensus       338 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~p~-  402 (504)
                      ...+...|++++|+..|++++.-....|+          ..+|+.+..+|...|++++|...+++..+..    ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            44455667777777777776553322222          3567888888999999999998888876431    11222 


Q ss_pred             ----hhhHHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 043204          403 ----GETYGILVDGLCRDGRFLEASRVLEEMLIR  432 (504)
Q Consensus       403 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  432 (504)
                          ...+..+..+|...|++++|.+.|++..+.
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence                224667889999999999999999998763

>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=97.38  E-value=0.00018  Score=48.28  Aligned_cols=74  Identities=4%  Similarity=-0.056  Sum_probs=44.3

Q ss_pred             chHHHHHHHhcCChhHHHHHHHHHHhcCCCC---Ccc-hhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHH
Q 043204           11 PTYLSQIIKKQKSPLTALKIFKEAKEKYPNY---RHN-GPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFAT   85 (504)
Q Consensus        11 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (504)
                      +-.+...+.+.|++++|+..|+++.+..|..   .++ ..++..+..++.+.|++++|++.++++.+.. |-+..+++.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~~N   85 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            3345666777777777777777776653321   111 3456666667777777777777777766665 344444443

>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=96.76  E-value=0.037  Score=37.47  Aligned_cols=66  Identities=17%  Similarity=0.149  Sum_probs=48.9

Q ss_pred             hhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 043204          404 ETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLIRGLCSIGKQYEAVMWLEEMISQAKL  470 (504)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  470 (504)
                      ..++..++...++|+-+.-.+++..+.+.+ +|++...-.+..+|.+.|...++-+++.+..+.|++
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            344556677778888888888888876643 677777778888888888888888888888877753

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.0048  Score=40.91  Aligned_cols=63  Identities=14%  Similarity=0.014  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHhhcCC----C-CcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhC
Q 043204          118 FNTLLKEMVKESKLEAAHILFLRSCYGW----E-VKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQ  180 (504)
Q Consensus       118 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  180 (504)
                      +-.+...+.+.|++++|...|++.....    . ......+++.|..++.+.|++++|++.+++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3345555555555555555555543211    0 1112345666677777777777777777776664

>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=96.32  E-value=0.063  Score=37.86  Aligned_cols=110  Identities=13%  Similarity=0.017  Sum_probs=57.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhh----cCcHHH
Q 043204          346 MVDEALEVIEEEMVKGTFVPTVRVYNILLKGLCDAGNSAVAVMYLKKMSKQVGCVANGETYGILVDGLCR----DGRFLE  421 (504)
Q Consensus       346 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  421 (504)
                      ++++|.+.|+++... |   +...+..|.  .....+.++|.+++++..+. +   ++.....|...|..    ..+.++
T Consensus         8 d~~~A~~~~~kaa~~-g---~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           8 DLKKAIQYYVKACEL-N---EMFGCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHT-T---CTTHHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             CHHHHHHHHHHHHHC-C---Chhhhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHH
Confidence            566777777764433 2   112222222  23345666677777666554 3   33334444444433    345666


Q ss_pred             HHHHHHHHHhcCcCCCcchHHHHHHHHHc----cCCHHHHHHHHHHHHHcC
Q 043204          422 ASRVLEEMLIRSYWPCVETYNVLIRGLCS----IGKQYEAVMWLEEMISQA  468 (504)
Q Consensus       422 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  468 (504)
                      |.++|++..+.|   ++.....|...|..    ..+.++|.++|++..+.|
T Consensus        78 A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          78 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            777777666655   33334444444443    345666666666666555

>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=96.18  E-value=0.08  Score=37.31  Aligned_cols=78  Identities=12%  Similarity=0.069  Sum_probs=45.8

Q ss_pred             ChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh----cCChhH
Q 043204           23 SPLTALKIFKEAKEKYPNYRHNGPVYASMIGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR----AGQLNE   98 (504)
Q Consensus        23 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   98 (504)
                      |+++|+++|++..+.  +   +...+..|..  ....+.++|.+++++..+.|   ++.....|...|..    ..+.++
T Consensus         8 d~~~A~~~~~kaa~~--g---~~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           8 DLKKAIQYYVKACEL--N---EMFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHT--T---CTTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             CHHHHHHHHHHHHHC--C---Chhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHH
Confidence            677888888888776  3   4444444432  33456677777777776665   33344444444443    234566


Q ss_pred             HHHHHHHhhhCC
Q 043204           99 AVSLFKNLSQFN  110 (504)
Q Consensus        99 a~~~~~~~~~~~  110 (504)
                      |.+.|+...+.+
T Consensus        78 A~~~~~~aa~~g   89 (133)
T d1klxa_          78 AAQYYSKACGLN   89 (133)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHhhhhccC
Confidence            666666655554

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.81  E-value=0.19  Score=34.20  Aligned_cols=72  Identities=11%  Similarity=0.070  Sum_probs=39.1

Q ss_pred             hhHHHHHHHHhhc---CcHHHHHHHHHHHHhcCcCCC-cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 043204          404 ETYGILVDGLCRD---GRFLEASRVLEEMLIRSYWPC-VETYNVLIRGLCSIGKQYEAVMWLEEMISQAKLPDISVWSS  478 (504)
Q Consensus       404 ~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  478 (504)
                      .+--....++++.   .+.+++..++++..+.+ +.+ ...+-.|.-+|.+.|++++|.+.++++++  +.|+..-...
T Consensus        36 qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~qA~~  111 (124)
T d2pqrb1          36 QSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQVGA  111 (124)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHH
T ss_pred             chHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcHHHHH
Confidence            3434444445443   34456666666666543 112 23445556667777777777777777764  3455544333

>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=93.49  E-value=0.66  Score=31.31  Aligned_cols=141  Identities=12%  Similarity=0.147  Sum_probs=85.8

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHH
Q 043204           90 YARAGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDL  169 (504)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  169 (504)
                      +.-.|..++..++..+.....   +..-||-+|--....-+-+...++++.+..-.++.              .+++...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCch--------------hhhcHHH
Confidence            344577777777777665532   13344555555555566666666666665433222              2334444


Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHH
Q 043204          170 ALHVFQEMDFQGCYPDRESYHILMKGLCNDRRLNEATHLLYSMFWRISQKGSGEDIVIYRTLLFALCDQGKIQDAMQILE  249 (504)
Q Consensus       170 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  249 (504)
                      ....+-.+-     .+...+...+.....+|+-++-.++++.+    .+ .-++++...-.+..+|.+.|...++-+++.
T Consensus        75 vv~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l----~k-n~~i~~~~llkia~A~kkig~~re~nell~  144 (161)
T d1wy6a1          75 VVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREI----LK-NNEVSASILVAIANALRRVGDERDATTLLI  144 (161)
T ss_dssp             HHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHH----C---CCSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHH----Hh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHH
Confidence            444333332     13445566677777788888877777776    33 345667777778888888888888888888


Q ss_pred             HHHHcCCC
Q 043204          250 KILRKGLK  257 (504)
Q Consensus       250 ~~~~~~~~  257 (504)
                      +..+.|..
T Consensus       145 ~ACe~G~K  152 (161)
T d1wy6a1         145 EACKKGEK  152 (161)
T ss_dssp             HHHHTTCH
T ss_pred             HHHHHhHH
Confidence            88877653

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.38  E-value=0.47  Score=32.23  Aligned_cols=45  Identities=13%  Similarity=0.002  Sum_probs=18.3

Q ss_pred             hhHHHHHHHHHHHCCCCcchhhHHHHHHHHhcCCCHHHHHHHHHH
Q 043204          312 IVEGDKVLDEMRTKGFWPSLVMYEAKLAALFKDGMVDEALEVIEE  356 (504)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  356 (504)
                      .++++.+++++.+.+..-....+-.|.-+|.+.|++++|.+.++.
T Consensus        54 ~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~   98 (124)
T d2pqrb1          54 ERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDT   98 (124)
T ss_dssp             HHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            344444444444332110112233334444445555555554444

>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=92.21  E-value=3.2  Score=35.91  Aligned_cols=123  Identities=8%  Similarity=-0.023  Sum_probs=63.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCcchhcHHHHHHHHh--ccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh
Q 043204           15 SQIIKKQKSPLTALKIFKEAKEKYPNYRHNGPVYASMIGILS--ESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR   92 (504)
Q Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (504)
                      +.-..+.|+...+.++...+. .+| +.    .|...-..-.  ......+...+++.-...  +.....-...+..+.+
T Consensus        13 a~~a~~~~~~~~~~~~~~~L~-dyp-L~----pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~~--P~~~~lr~~~l~~L~~   84 (450)
T d1qsaa1          13 IKQAWDNRQMDVVEQMMPGLK-DYP-LY----PYLEYRQITDDLMNQPAVTVTNFVRANPTL--PPARTLQSRFVNELAR   84 (450)
T ss_dssp             HHHHHHTTCHHHHHHHSGGGT-TST-TH----HHHHHHHHHHTGGGCCHHHHHHHHHHCTTC--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHhhhc-CCC-CH----HHHHHHHHHhccccCCHHHHHHHHHHCCCC--hhHHHHHHHHHHHHHh
Confidence            344566778888777777763 333 22    2332222222  223444444444332211  1122233444666777


Q ss_pred             cCChhHHHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhhcCCCCcch
Q 043204           93 AGQLNEAVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSCYGWEVKSR  150 (504)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  150 (504)
                      .++++..+..+.     ..+.+...-.....+....|+.+.|...+..+-......|+
T Consensus        85 ~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~  137 (450)
T d1qsaa1          85 REDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN  137 (450)
T ss_dssp             TTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT
T ss_pred             ccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch
Confidence            777766554331     22334444456677777788888887777766554444443

>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=91.13  E-value=1.1  Score=28.50  Aligned_cols=44  Identities=9%  Similarity=0.049  Sum_probs=20.8

Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHhcchHHHHHHHHHHhh
Q 043204           99 AVSLFKNLSQFNCVNWTQSFNTLLKEMVKESKLEAAHILFLRSC  142 (504)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  142 (504)
                      +.+-++.+...+..|++.+..+.+++|-+.+++..|.++|+...
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.99  E-value=1.5  Score=27.96  Aligned_cols=62  Identities=18%  Similarity=0.143  Sum_probs=40.2

Q ss_pred             ChHHHHHHHHHHHHhcCCCCchhhHHHHHHHHhhcCcHHHHHHHHHHHHhcCcCCCcchHHHHH
Q 043204          382 NSAVAVMYLKKMSKQVGCVANGETYGILVDGLCRDGRFLEASRVLEEMLIRSYWPCVETYNVLI  445 (504)
Q Consensus       382 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  445 (504)
                      |.-+..+-++.+... .+.|++.+..+.+++|.+.+++..|.++|+..+.+- .++...|..++
T Consensus        21 D~we~rrgmN~l~~~-DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGY-DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTS-SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            344455555555554 667777777777777777778888887777776542 23455565554

>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=81.74  E-value=15  Score=31.50  Aligned_cols=136  Identities=7%  Similarity=-0.009  Sum_probs=73.3

Q ss_pred             HHHHhccCChhHHHHHHHHhhcCCCCccHHHHHHHHHHHHh--cCChhHHHHHHHHhhhCCCCccH-HHHHHHHHHHHhc
Q 043204           52 IGILSESNRITEMKEVIDQMKGDSCECKDSVFATAIRTYAR--AGQLNEAVSLFKNLSQFNCVNWT-QSFNTLLKEMVKE  128 (504)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~  128 (504)
                      +.-..+.|+...+.++...+...  +  -..|-..-..-..  .....+...++   .+..-.|-. ..-...+..+.+.
T Consensus        13 a~~a~~~~~~~~~~~~~~~L~dy--p--L~pYl~~~~l~~~~~~~~~~~i~~Fl---~~~p~~P~~~~lr~~~l~~L~~~   85 (450)
T d1qsaa1          13 IKQAWDNRQMDVVEQMMPGLKDY--P--LYPYLEYRQITDDLMNQPAVTVTNFV---RANPTLPPARTLQSRFVNELARR   85 (450)
T ss_dssp             HHHHHHTTCHHHHHHHSGGGTTS--T--THHHHHHHHHHHTGGGCCHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHhhhcCC--C--CHHHHHHHHHHhccccCCHHHHHHHH---HHCCCChhHHHHHHHHHHHHHhc
Confidence            34456778888888888877432  2  2233332222222  23444444433   333222322 2234456677778


Q ss_pred             chHHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043204          129 SKLEAAHILFLRSCYGWEVKSRIQSLNLLMDVLCQCRRSDLALHVFQEMDFQGCYPDRESYHILMKGLCNDRR  201 (504)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  201 (504)
                      +++......+.      ..+.+...-.....+....|+.+.|...+..+-..|.. .+.....+...+...|.
T Consensus        86 ~~w~~~~~~~~------~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~~~  151 (450)
T d1qsaa1          86 EDWRGLLAFSP------EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRASGK  151 (450)
T ss_dssp             TCHHHHHHHCC------SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHTTC
T ss_pred             cCHHHHHHhcc------CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-CchHHHHHHHHHHhcCC
Confidence            88776554431      22334444455667777888888888888877666532 33445555555544443