Citrus Sinensis ID: 044256

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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---
Protein Sequence
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEEccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccc
Coil and Loop (DISEMBL)
TSKVLGALMAFGSFIRrcyrplndvtfNSLIKGFCMEGNIRDASQLVKKMAtfgcrpnvttcdTLITglrrtgnmnLTLKLHQEMVNgmgdfggiykpnvfcygslidglcKDRLVDQTKDLFMEMKDKGinantllckKTKLVEANRLLELMMQrglnpviftytpllngyclvGKVNVAIALFDsmarkgfmpdvFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMklcnvvpetftcnifidglcknghvlevmelfptleisnCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEengcaldvdTFNTLMISFLQKE
Flexible Loop (DISEMBL)
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMatfgcrpnvttCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDkginantllckkTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
Low Complexity Region (SEG)
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
Disordered region (IsUnstruct)
***VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL***
Disordered Region (DISOPRED)
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK*
Disordered Region (DISEMBL)
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
Disordered Region (DISPRO)
*SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE
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	363	2.2.26 [Sep-21-2011]
P0C7Q7	602	Putative pentatricopeptid	no	no	0.950	0.573	0.318	2e-52
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.975	0.560	0.309	9e-51
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.925	0.533	0.320	1e-50
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.966	0.571	0.309	2e-47
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.969	0.555	0.291	5e-47
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.969	0.629	0.289	8e-47
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.972	0.560	0.293	2e-46
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.983	0.576	0.304	2e-46
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.925	0.534	0.303	4e-46
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.942	0.592	0.293	1e-45

>sp|P0C7Q7|PPR38_ARATH Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial OS=Arabidopsis thaliana GN=At1g12700 PE=3 SV=1

 Score =  206 bits (525), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 135/424 (31%), Positives = 215/424 (50%), Gaps = 79/424 (18%)

Query: 4   VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCD 63
           VLG +M  G      Y P +  TFN+LIKG  +EG + +A  LV +M   GC+P+V T +
Sbjct: 145 VLGKVMKLG------YEP-DTTTFNTLIKGLFLEGKVSEAVVLVDRMVENGCQPDVVTYN 197

Query: 64  TLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLF 123
           +++ G+ R+G+ +L L L ++M           K +VF Y ++ID LC+D  +D    LF
Sbjct: 198 SIVNGICRSGDTSLALDLLRKMEERN------VKADVFTYSTIIDSLCRDGCIDAAISLF 251

Query: 124 MEMKDKGINANTL--------LCK-----------------------------------K 140
            EM+ KGI ++ +        LCK                                   +
Sbjct: 252 KEMETKGIKSSVVTYNSLVRGLCKAGKWNDGALLLKDMVSREIVPNVITFNVLLDVFVKE 311

Query: 141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSY 200
            KL EAN L + M+ RG++P I TY  L++GYC+  +++ A  + D M R    PD+ ++
Sbjct: 312 GKLQEANELYKEMITRGISPNIITYNTLMDGYCMQNRLSEANNMLDLMVRNKCSPDIVTF 371

Query: 201 SVLINGYCKNFNVEEAMNVSR--------------EMILNGF---------KKIFNEMKL 237
           + LI GYC    V++ M V R               +++ GF         +++F EM  
Sbjct: 372 TSLIKGYCMVKRVDDGMKVFRNISKRGLVANAVTYSILVQGFCQSGKIKLAEELFQEMVS 431

Query: 238 CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEI 297
             V+P+  T  I +DGLC NG + + +E+F  L+ S  +L + ++ ++I G CK G  E 
Sbjct: 432 HGVLPDVMTYGILLDGLCDNGKLEKALEIFEDLQKSKMDLGIVMYTTIIEGMCKGGKVED 491

Query: 298 ASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI 357
           A  LF  L CK +  +V+ Y ++I  L K+G + + N LL  MEE+G A +  T+NTL+ 
Sbjct: 492 AWNLFCSLPCKGVKPNVMTYTVMISGLCKKGSLSEANILLRKMEEDGNAPNDCTYNTLIR 551

Query: 358 SFLQ 361
           + L+
Sbjct: 552 AHLR 555

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ16|PPR94_ARATH Pentatricopeptide repeat-containing protein At1g62910 OS=Arabidopsis thaliana GN=At1g62910 PE=2 SV=1

 Score =  201 bits (510), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 132/427 (30%), Positives = 214/427 (50%), Gaps = 73/427 (17%)

Query: 1   TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT 60
           + ++  A+      +   Y+P +  TF +LI G  +     +A  LV +M   GC+P++ 
Sbjct: 166 SKRISDAVALVDQMVEMGYKP-DTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLV 224

Query: 61  TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTK 120
           T  T++ GL + G+++L L L ++M  G        + +V  Y ++IDGLCK + +D   
Sbjct: 225 TYGTVVNGLCKRGDIDLALSLLKKMEKGK------IEADVVIYNTIIDGLCKYKHMDDAL 278

Query: 121 DLFMEMKDKGI---------------------NANTLLC--------------------- 138
           +LF EM +KGI                     +A+ LL                      
Sbjct: 279 NLFTEMDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAF 338

Query: 139 -KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV 197
            K+ KLVEA +L + M++R ++P IFTY+ L+NG+C+  +++ A  +F+ M  K   P+V
Sbjct: 339 VKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNV 398

Query: 198 FSYSVLINGYCKNFNVEEAMNVSREM--------------ILNGF---------KKIFNE 234
            +YS LI G+CK   VEE M + REM              +++GF         + +F +
Sbjct: 399 VTYSTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQ 458

Query: 235 MKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI 294
           M    V P   T NI +DGLCKNG + + M +F  L+ S  E  +  +N +I G CK G 
Sbjct: 459 MVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGK 518

Query: 295 FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNT 354
            E   ELF  LS K +  +V+AYN +I    ++G  ++ + LL  M+E+G   +  T+NT
Sbjct: 519 VEDGWELFCNLSLKGVSPNVIAYNTMISGFCRKGSKEEADSLLKKMKEDGPLPNSGTYNT 578

Query: 355 LMISFLQ 361
           L+ + L+
Sbjct: 579 LIRARLR 585

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  201 bits (510), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 131/409 (32%), Positives = 198/409 (48%), Gaps = 73/409 (17%)

Query: 19  YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLT 78
           Y+P N VTFN+LI G  +     +A  L+ +M   GC+P++ T   ++ GL + G+ +L 
Sbjct: 182 YQP-NTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLA 240

Query: 79  LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL-- 136
             L  +M  G        +P V  Y ++IDGLCK + +D   +LF EM+ KGI  N +  
Sbjct: 241 FNLLNKMEQGK------LEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTY 294

Query: 137 ------LC-----------------------------------KKTKLVEANRLLELMMQ 155
                 LC                                   K+ KLVEA +L + M++
Sbjct: 295 SSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVK 354

Query: 156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE 215
           R ++P I TY+ L+NG+C+  +++ A  +F+ M  K   PDV +Y+ LI G+CK   VEE
Sbjct: 355 RSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEE 414

Query: 216 AMNVSREMILNGF-----------------------KKIFNEMKLCNVVPETFTCNIFID 252
            M V REM   G                        ++IF EM    V P   T N  +D
Sbjct: 415 GMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLD 474

Query: 253 GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA 312
           GLCKNG + + M +F  L+ S  E  +  +N +I G CK G  E   +LF  LS K +  
Sbjct: 475 GLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKP 534

Query: 313 DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ 361
           DVVAYN +I    ++G  ++ + L   M+E+G   +   +NTL+ + L+
Sbjct: 535 DVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLR 583

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  190 bits (482), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 132/426 (30%), Positives = 207/426 (48%), Gaps = 75/426 (17%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           ++  A+      +   Y+P + VTF +L+ G        +A  LV++M   GC+P++ T 
Sbjct: 150 RISEAVALVDQMVEMGYQP-DTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTY 208

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
             +I GL + G  +L L L  +M  G        + +V  Y ++ID LCK R VD   +L
Sbjct: 209 GAVINGLCKRGEPDLALNLLNKMEKGK------IEADVVIYSTVIDSLCKYRHVDDALNL 262

Query: 123 FMEMKDKGI---------------------NANTLL----------------------CK 139
           F EM +KGI                     +A+ LL                       K
Sbjct: 263 FTEMDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAK 322

Query: 140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS 199
           + KL+EA +L + M+QR ++P I TY  L+NG+C+  +++ A  +F  M  K  +PDV +
Sbjct: 323 EGKLIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVT 382

Query: 200 YSVLINGYCKNFNVEEAMNVSREM--------------ILNGF---------KKIFNEMK 236
           Y+ LING+CK   V + M + R+M              +++GF         + +F +M 
Sbjct: 383 YNTLINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMV 442

Query: 237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE 296
              V P   T N  +DGLCKNG + + M +F  L+ S  E  +  +N +  G CK G  E
Sbjct: 443 SDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVE 502

Query: 297 IASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY-LLLSMEENGCALDVDTFNTL 355
              +LF  LS K +  DV+AYN +I    K+G +K+E Y L + M+E+G   D  T+NTL
Sbjct: 503 DGWDLFCSLSLKGVKPDVIAYNTMISGFCKKG-LKEEAYTLFIKMKEDGPLPDSGTYNTL 561

Query: 356 MISFLQ 361
           + + L+
Sbjct: 562 IRAHLR 567

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD8|PPR90_ARATH Pentatricopeptide repeat-containing protein At1g62590 OS=Arabidopsis thaliana GN=At1g62590 PE=2 SV=1

 Score =  188 bits (478), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 124/425 (29%), Positives = 204/425 (48%), Gaps = 73/425 (17%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           ++  A+      +   YRP + +TF +LI G  +     +A  LV +M   GC+PN+ T 
Sbjct: 170 RISDAVALVDQMVEMGYRP-DTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTY 228

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
             ++ GL + G+ +L L L  +M           + +V  + ++ID LCK R VD   +L
Sbjct: 229 GVVVNGLCKRGDTDLALNLLNKME------AAKIEADVVIFNTIIDSLCKYRHVDDALNL 282

Query: 123 FMEMKDKGINANTL--------LC-----------------------------------K 139
           F EM+ KGI  N +        LC                                   K
Sbjct: 283 FKEMETKGIRPNVVTYSSLISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVK 342

Query: 140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS 199
           + K VEA +L + M++R ++P IFTY  L+NG+C+  +++ A  +F+ M  K   PDV +
Sbjct: 343 EGKFVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVT 402

Query: 200 YSVLINGYCKNFNVEEAMNVSREMILNGF-----------------------KKIFNEMK 236
           Y+ LI G+CK+  VE+   + REM   G                        +K+F +M 
Sbjct: 403 YNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMV 462

Query: 237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE 296
              V P+  T +I +DGLC NG + + +E+F  ++ S  +L + I+ ++I G CK G  +
Sbjct: 463 SDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVD 522

Query: 297 IASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
              +LF  LS K +  +VV YN +I  L  +  +++   LL  M+E+G   +  T+NTL+
Sbjct: 523 DGWDLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLI 582

Query: 357 ISFLQ 361
            + L+
Sbjct: 583 RAHLR 587

Arabidopsis thaliana (taxid: 3702)

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

 Score =  187 bits (476), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 123/425 (28%), Positives = 204/425 (48%), Gaps = 73/425 (17%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           ++  A+      +   YRP + +TF +LI G  +     +A  LV +M   GC+PN+ T 
Sbjct: 95  RISDAVALVDQMVEMGYRP-DTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTY 153

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
             ++ GL + G+++L   L  +M           + +V  + ++ID LCK R VD   +L
Sbjct: 154 GVVVNGLCKRGDIDLAFNLLNKME------AAKIEADVVIFNTIIDSLCKYRHVDDALNL 207

Query: 123 FMEMKDKGINANTL--------LC-----------------------------------K 139
           F EM+ KGI  N +        LC                                   K
Sbjct: 208 FKEMETKGIRPNVVTYSSLISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVK 267

Query: 140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS 199
           + K VEA +L + M++R ++P IFTY  L+NG+C+  +++ A  +F+ M  K   PD+ +
Sbjct: 268 EGKFVEAEKLHDDMIKRSIDPDIFTYNSLINGFCMHDRLDKAKQMFEFMVSKDCFPDLDT 327

Query: 200 YSVLINGYCKNFNVEEAMNVSREMILNGF-----------------------KKIFNEMK 236
           Y+ LI G+CK+  VE+   + REM   G                        +K+F +M 
Sbjct: 328 YNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMV 387

Query: 237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE 296
              V P+  T +I +DGLC NG + + +E+F  ++ S  +L + I+ ++I G CK G  +
Sbjct: 388 SDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVD 447

Query: 297 IASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
              +LF  LS K +  +VV YN +I  L  +  +++   LL  M+E+G   D  T+NTL+
Sbjct: 448 DGWDLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPDSGTYNTLI 507

Query: 357 ISFLQ 361
            + L+
Sbjct: 508 RAHLR 512

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  186 bits (473), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 125/426 (29%), Positives = 207/426 (48%), Gaps = 73/426 (17%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           +++  A+   G  +   Y+P +  TFN+LI G        +A  LV +M   GC+P++ T
Sbjct: 165 NRISDAVSLVGQMVEMGYQP-DSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVT 223

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
              ++ GL + G+++L L L ++M  G        +P V  Y ++ID LC  + V+   +
Sbjct: 224 YGIVVNGLCKRGDIDLALSLLKKMEQGK------IEPGVVIYNTIIDALCNYKNVNDALN 277

Query: 122 LFMEMKDKGINANTL--------LC----------------------------------- 138
           LF EM +KGI  N +        LC                                   
Sbjct: 278 LFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFV 337

Query: 139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVF 198
           K+ KLVEA +L + M++R ++P IFTY+ L+NG+C+  +++ A  +F+ M  K   P+V 
Sbjct: 338 KEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVV 397

Query: 199 SYSVLINGYCKNFNVEEAMNVSREM--------------ILNGF---------KKIFNEM 235
           +Y+ LI G+CK   V+E M + REM              +++GF         + +F +M
Sbjct: 398 TYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQM 457

Query: 236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF 295
               V+P+  T +I +DGLC NG V   + +F  L+ S  E  +  +N +I G CK G  
Sbjct: 458 VSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKV 517

Query: 296 EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL 355
           E   +LF  LS K +  +VV Y  ++    ++G  ++ + L   M+E G   D  T+NTL
Sbjct: 518 EDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTL 577

Query: 356 MISFLQ 361
           + + L+
Sbjct: 578 IRAHLR 583

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  186 bits (472), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 138/453 (30%), Positives = 200/453 (44%), Gaps = 96/453 (21%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           K+L A    G   +  Y P + +TF++L+ GFC+EG + +A  LV +M     RP++ T 
Sbjct: 120 KLLFAFSVLGRAWKLGYEP-DTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTV 178

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVN-GMGDFGGIYKP----------------------- 98
            TLI GL   G ++  L L   MV  G       Y P                       
Sbjct: 179 STLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEE 238

Query: 99  -----NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL--------LC------- 138
                +V  Y  +ID LCKD   D    LF EM+ KGI A+ +        LC       
Sbjct: 239 RNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDD 298

Query: 139 ----------------------------KKTKLVEANRLLELMMQRGLNPVIFTYTPLLN 170
                                       K+ KL+EA  L   M+ RG+ P   TY  L++
Sbjct: 299 GAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLID 358

Query: 171 GYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMI------ 224
           G+C    ++ A  +FD M  KG  PD+ +YS+LIN YCK   V++ M + RE+       
Sbjct: 359 GFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIP 418

Query: 225 -----------------LNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELF 267
                            LN  K++F EM    V P   T  I +DGLC NG + + +E+F
Sbjct: 419 NTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIF 478

Query: 268 PTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE 327
             ++ S   L + I+N +I G C     + A  LF  LS K +  DVV YN++I  L K+
Sbjct: 479 EKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKK 538

Query: 328 GQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
           G + + + L   M+E+GC  D  T+N L+ + L
Sbjct: 539 GSLSEADMLFRKMKEDGCTPDDFTYNILIRAHL 571

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score =  186 bits (471), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 124/409 (30%), Positives = 201/409 (49%), Gaps = 73/409 (17%)

Query: 19  YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLT 78
           Y+P N VTFN+LI G  +     +A  L+ +M   GC+P++ T  T++ GL + G+++L 
Sbjct: 181 YQP-NTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLA 239

Query: 79  LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL-- 136
           L L ++M  G        + +V  Y ++ID LC  + V+   +LF EM +KGI  N +  
Sbjct: 240 LSLLKKMEKGK------IEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTY 293

Query: 137 ------LC-----------------------------------KKTKLVEANRLLELMMQ 155
                 LC                                   K+ KLVEA +L + M++
Sbjct: 294 NSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIK 353

Query: 156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE 215
           R ++P IFTY+ L+NG+C+  +++ A  +F+ M  K   P+V +Y+ LI G+CK   VEE
Sbjct: 354 RSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEE 413

Query: 216 AMNVSREMILNGF-----------------------KKIFNEMKLCNVVPETFTCNIFID 252
            M + REM   G                        +KIF +M    V P+  T +I +D
Sbjct: 414 GMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLD 473

Query: 253 GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA 312
           GLCK G + + + +F  L+ S  E  +  +N +I G CK G  E   +LF  LS K +  
Sbjct: 474 GLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKP 533

Query: 313 DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ 361
           +V+ Y  +I    ++G  ++ + L   M+E+G   +  T+NTL+ + L+
Sbjct: 534 NVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLR 582

Arabidopsis thaliana (taxid: 3702)

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

 Score =  184 bits (466), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 122/415 (29%), Positives = 197/415 (47%), Gaps = 73/415 (17%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           ++  A+      +   YRP + +TF +LI G  +     +A  LV +M   GC+PN+ T 
Sbjct: 170 RISDAVALVDQMVEMGYRP-DTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTY 228

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
             ++ GL + G+++L   L  +M           + NV  Y ++ID LCK R  D   +L
Sbjct: 229 GVVVNGLCKRGDIDLAFNLLNKME------AAKIEANVVIYSTVIDSLCKYRHEDDALNL 282

Query: 123 FMEMKDKGINANTL--------LC-----------------------------------K 139
           F EM++KG+  N +        LC                                   K
Sbjct: 283 FTEMENKGVRPNVITYSSLISCLCNYERWSDASRLLSDMIERKINPNVVTFNALIDAFVK 342

Query: 140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS 199
           + KLVEA +L + M++R ++P IFTY+ L+NG+C+  +++ A  +F+ M  K   P+V +
Sbjct: 343 EGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVT 402

Query: 200 YSVLINGYCKNFNVEEAMNVSREM--------------ILNGF---------KKIFNEMK 236
           Y+ LING+CK   ++E + + REM              +++GF         + +F +M 
Sbjct: 403 YNTLINGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMV 462

Query: 237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE 296
              V P   T N  +DGLCKNG + + M +F  L+ S  E  +  +N +I G CK G  E
Sbjct: 463 SDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVE 522

Query: 297 IASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDT 351
              +LF  LS K +  DV+ YN +I    ++G  ++ + L   M E+G   D  T
Sbjct: 523 DGWDLFCSLSLKGVKPDVIIYNTMISGFCRKGLKEEADALFRKMREDGPLPDSGT 577

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	363
359479583	627	PREDICTED: pentatricopeptide repeat-cont	0.994	0.575	0.418	2e-80
449444228	585	PREDICTED: pentatricopeptide repeat-cont	0.988	0.613	0.445	1e-78
449462479	580	PREDICTED: pentatricopeptide repeat-cont	0.966	0.605	0.435	4e-78
449444222	588	PREDICTED: pentatricopeptide repeat-cont	0.975	0.602	0.424	2e-75
449520325	605	PREDICTED: pentatricopeptide repeat-cont	0.966	0.580	0.413	3e-75
449529622	618	PREDICTED: pentatricopeptide repeat-cont	0.983	0.577	0.412	4e-75
449462477	597	PREDICTED: pentatricopeptide repeat-cont	0.994	0.604	0.407	2e-74
449520323	605	PREDICTED: pentatricopeptide repeat-cont	0.994	0.596	0.399	2e-73
255559961	628	pentatricopeptide repeat-containing prot	0.966	0.558	0.404	1e-69
147771990	2021	hypothetical protein VITISV_022963 [Viti	0.958	0.172	0.337	9e-62

>gi|359479583|ref|XP_002275680.2| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Vitis vinifera] gi|297735515|emb|CBI17955.3| unnamed protein product [Vitis vinifera]

 Score =  305 bits (781), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 179/428 (41%), Positives = 241/428 (56%), Gaps = 67/428 (15%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           +KV   L   G  +RR + P N VTF SL+KG C+   I +A+ L++KM   G RPNV T
Sbjct: 141 NKVDFGLAVLGEMLRRGHSP-NTVTFTSLVKGLCLGSRISEATGLLRKMVRMGYRPNVVT 199

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
             TL+ GL  TGN  L +KLH+EM+NG G FG   KPN+ CY ++ID LCKD L+D+ K+
Sbjct: 200 YGTLLNGLCMTGNTMLAVKLHEEMLNGNGGFGVTIKPNLVCYCTIIDSLCKDGLIDKGKE 259

Query: 122 LFMEMKDKGINANTL-------------------------------------------LC 138
           LF+EMK +GI+ + +                                           LC
Sbjct: 260 LFLEMKGRGISPDVVAYSSIIHGMCHTGRWEGAKGLFNEMVDEGVHPNVVTFNVLIDALC 319

Query: 139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVF 198
           K  K+ EAN LL+LM+QRG +P  FTY  L++G+CL G+++ A  LF SM  KG   D  
Sbjct: 320 KAGKMEEANHLLKLMIQRGESPDTFTYNTLIDGFCLEGRIDDARDLFVSMESKGIETDAV 379

Query: 199 SYSVLINGYCKNFNVEEAMNVSREM--------------ILNGFKK---------IFNEM 235
           SY+VLINGYCK+  + EA  + REM              +L G  +         +F EM
Sbjct: 380 SYNVLINGYCKSGRMVEAKKLYREMMCKEIMPTVITYNTLLTGLFREGKVRDAWNLFGEM 439

Query: 236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF 295
           K+ ++ PE+ T NI +DGLCKN H+ E MELF  LE  + +  ++IFN LI G CK    
Sbjct: 440 KVHDLTPESCTYNILLDGLCKNNHLSEAMELFHYLENHDFQPSIQIFNCLIDGLCKARKI 499

Query: 296 EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL 355
           EIA ELFN+LS + L  +V+ Y ++IH L K GQ++    L L MEE GCA ++ TFNTL
Sbjct: 500 EIARELFNRLSHEGLEPNVITYTVMIHGLCKSGQLENAKDLFLGMEEKGCAPNLVTFNTL 559

Query: 356 MISFLQKE 363
           M  F Q +
Sbjct: 560 MRGFCQND 567

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444228|ref|XP_004139877.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus] gi|449492643|ref|XP_004159059.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus]

 Score =  299 bits (765), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 174/391 (44%), Positives = 228/391 (58%), Gaps = 32/391 (8%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           ++V   L A    +RR Y P + VT+ SLIKG CME  I +A++L  +M   GC PNV T
Sbjct: 140 NRVREGLSAMAGIMRRGYIP-DVVTYTSLIKGLCMEHRISEATRLFIRMQKLGCWPNVVT 198

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
             TLI GL RTGN+NL LKLHQEM+NG   +    KPN+F Y  +ID LCK     + K 
Sbjct: 199 YGTLIKGLCRTGNINLALKLHQEMLNGTSPYAINCKPNIFSYNIIIDELCKIGKWKEAKR 258

Query: 122 LFMEMKDKGINANTL--------LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYC 173
           LF EM D+G+  + +        LCK+  ++EA + LE MM RG+ P +FT+T L+ G+C
Sbjct: 259 LFNEMVDQGVRPDVVTFSALIDTLCKEGMVIEAKKFLETMMLRGIVPDLFTFTSLIEGFC 318

Query: 174 LVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREM---------- 223
           LVG ++ A  LF SM  KG+ PDV SY+VLI GYCK FNVEEAM +  EM          
Sbjct: 319 LVGDLDSAKELFLSMPSKGYEPDVISYTVLIYGYCKTFNVEEAMKLYNEMLRVGKWPDMK 378

Query: 224 ----ILNGF---------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTL 270
               +L G          KK+F  +K   V    + C++F+DGLCKNG + E MELF  L
Sbjct: 379 TFCVLLKGLFLAGKVGDAKKLFGVVKPHAVPKNLYICSVFLDGLCKNGCLFEAMELFNEL 438

Query: 271 EISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQI 330
           +  N +L +E FN LI G CK    E A ELF KLS + L  DVV Y I+I+   K GQ+
Sbjct: 439 KSYNMKLDIESFNCLIDGLCKARKLETAWELFEKLSQEGLQPDVVTYCIMINGFCKNGQV 498

Query: 331 KKENYLLLSMEENGCALDVDTFNTLMISFLQ 361
              N L   MEENGC  ++ T++ L+  F +
Sbjct: 499 DNANILFQMMEENGCTPNLLTYSALLHGFYK 529

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462479|ref|XP_004148968.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  297 bits (761), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 171/393 (43%), Positives = 226/393 (57%), Gaps = 42/393 (10%)

Query: 10  AFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL 69
           AF   +RR Y P N VT+N+LIKG CME  I +A++L  +M   GC P+V T  TLI GL
Sbjct: 126 AFAGILRRGYSP-NIVTYNTLIKGLCMEHRISEATRLFLRMQKLGCTPDVVTYGTLIKGL 184

Query: 70  RRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK 129
             TGN+N+ LKLHQEM+N +  +    KPNV  Y  ++DGLCK    D+ K LF EMK +
Sbjct: 185 CGTGNINIALKLHQEMLNDISRYEINCKPNVITYNIIVDGLCKVGREDEAKQLFEEMKTQ 244

Query: 130 GINANTLL------------------CKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNG 171
           G+  N +L                  CK+ K++EA +LL +M++ G+ P + TY  L+ G
Sbjct: 245 GMIPNEMLDQGLQPDMVTFNVLIDTLCKEGKVIEAKKLLGVMIESGIVPDLVTYNSLIEG 304

Query: 172 YCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNG---- 227
           +C+VG +N A  LF SM  KG  PDV SY+VLINGY K   VEEAM +  EM+L G    
Sbjct: 305 FCMVGDLNSARELFVSMPSKGCEPDVISYNVLINGYSKTLKVEEAMKLYNEMLLVGKRPN 364

Query: 228 -------------------FKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFP 268
                               KK+F+ MK   +   ++T  IF+DGLCKN  + E M+LF 
Sbjct: 365 VITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIAENSYTYGIFLDGLCKNDCLFEAMKLFT 424

Query: 269 TLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEG 328
            L+ SN +L +E  N LI G CK G  E A ELF KLS +    +VV Y I+IH   +EG
Sbjct: 425 ELKSSNFKLEIENLNCLIDGLCKAGKLETAWELFEKLSNEGHEPNVVTYTIMIHGFCREG 484

Query: 329 QIKKENYLLLSMEENGCALDVDTFNTLMISFLQ 361
           Q+ K N L+  ME NGC  D+ T+NTLM  F +
Sbjct: 485 QVDKANVLIQKMEANGCTPDIITYNTLMRGFYE 517

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444222|ref|XP_004139874.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus] gi|449492651|ref|XP_004159061.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus]

 Score =  288 bits (738), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 164/386 (42%), Positives = 224/386 (58%), Gaps = 32/386 (8%)

Query: 7   ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI 66
            L A    +RR Y P + VTF +LIKG C+E  I +A++L  +M   GC PNV T  TLI
Sbjct: 145 GLAAMAGIMRRGYIP-DVVTFTTLIKGLCVEHRIIEATKLFMRMQKLGCTPNVVTYGTLI 203

Query: 67  TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM 126
            GL   GN+N+ LK HQEM+N    +    +PNV  Y  +IDGLCK    ++   LF EM
Sbjct: 204 KGLCALGNINIALKWHQEMLNDTSPYVFNCRPNVISYSIIIDGLCKVGNWEEAICLFNEM 263

Query: 127 KDKGINANT--------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV 178
            D+G+  N         +LCK+ ++++A +LLE+M+Q G+ P +FTYT L+ G+CLVG +
Sbjct: 264 VDQGVQPNVVTFSVLIDMLCKEGQVIKAKKLLEMMIQIGIVPNLFTYTSLIKGFCLVGDL 323

Query: 179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF---------- 228
           N A  LF SM  KG+ PDV SY++LINGYCK   VEEAM +  EM+  G           
Sbjct: 324 NSAKELFVSMPSKGYEPDVISYNMLINGYCKTLKVEEAMKLFNEMLHVGMWPDVKTSGVL 383

Query: 229 -------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC 275
                        K++F  +K   +  +   C IF+DGLCKNG++ E M+LF  LE  N 
Sbjct: 384 LKALFLAGKVDDAKELFRVIKPYAMPKDLCICCIFLDGLCKNGYIFEAMKLFNELESYNM 443

Query: 276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY 335
           +L +E F  LI G CK G  E A ELF KL  + +  D +AY+ +IH   K+GQ+ K N 
Sbjct: 444 KLDIETFGCLIDGLCKAGKLETAWELFEKLYEEGIQPDAMAYSSMIHGFCKKGQVDKANI 503

Query: 336 LLLSMEENGCALDVDTFNTLMISFLQ 361
           L   MEENGC+ D+ T++ LM  F +
Sbjct: 504 LFQKMEENGCSPDLITYSILMRGFYE 529

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520325|ref|XP_004167184.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  288 bits (736), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 173/418 (41%), Positives = 228/418 (54%), Gaps = 67/418 (16%)

Query: 10  AFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL 69
           AF   +RR Y P N VT+N+LIKG CME  I +A++L  +M   GC P+V T  TLI GL
Sbjct: 126 AFAGILRRGYSP-NIVTYNTLIKGLCMEHRISEATRLFLRMQKLGCTPDVVTYGTLIKGL 184

Query: 70  RRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK 129
             TGN+N+ LKLHQEM+N +  +    KPNV  Y  ++DGLCK    D+ K LF EMK +
Sbjct: 185 CGTGNINIALKLHQEMLNDISRYEINCKPNVITYNIIVDGLCKVGREDEAKQLFEEMKTQ 244

Query: 130 G-----INANTL--------------------------------------LCKKTKLVEA 146
           G     I+ N+L                                      LCK+ K++EA
Sbjct: 245 GMIPSIISYNSLIHGFCCAGKWEESKRLLDEMLDQGLQPDMVTFNVLIDTLCKEGKVIEA 304

Query: 147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLING 206
            +LL +M++ G+ P + TY  L+ G+C+VG +N A  LF SM  KG  PDV SY+VLING
Sbjct: 305 KKLLGVMIESGIVPDLVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVISYNVLING 364

Query: 207 YCKNFNVEEAMNVSREMILNG-----------------------FKKIFNEMKLCNVVPE 243
           Y K   VEEAM +  EM+L G                        KK+F+ MK   +   
Sbjct: 365 YSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIAEN 424

Query: 244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFN 303
           ++T  IF+DGLCKN  + E M+LF  L+ SN +L +E  N LI G CK G  E A ELF 
Sbjct: 425 SYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGLCKAGKLETAWELFE 484

Query: 304 KLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ 361
           KLS +    +VV Y I+IH   +EGQ+ K N L+  ME NGC  D+ T+NTLM  F +
Sbjct: 485 KLSNEGHEPNVVTYTIMIHGFCREGQVDKANVLIQKMEANGCTPDIITYNTLMRGFYE 542

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449529622|ref|XP_004171797.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  288 bits (736), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 175/424 (41%), Positives = 228/424 (53%), Gaps = 67/424 (15%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           ++V  AL A    +RR Y P N VT+ +LIKG CME  I +A++L  +M   GC PN  T
Sbjct: 140 NRVSEALAAMAGILRRGYIP-NVVTYTTLIKGLCMEHRISEATRLFLRMQKLGCTPNAVT 198

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
             TLI GL +TGN+N+ LKLH+EM+N    +G   KP V  Y  +IDGLCK    D+ K+
Sbjct: 199 YGTLIKGLCQTGNVNIALKLHKEMLNDASQYGVNCKPGVITYSIIIDGLCKVGREDEAKE 258

Query: 122 LFMEMKDKG-----INANTL--------------------------------------LC 138
           LF EMK +G     I+ +TL                                      LC
Sbjct: 259 LFEEMKAQGMIPDVISYSTLIHGFCCAGKWDQSKHLFDEMVDQGVQPDMVTFSVLIDTLC 318

Query: 139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVF 198
           K+ K+ EA +LLE+M+QRG+ P + TY  L++G+C+VG +N A  LF SM  KG  PD  
Sbjct: 319 KEGKVTEAKKLLEVMIQRGIVPNLITYNSLIDGFCMVGDLNSARELFLSMPSKGLEPDEI 378

Query: 199 SYSVLINGYCKNFNVEEAMNVSREMILNG-----------------------FKKIFNEM 235
           SY+ LINGYCK + V+EAMN+  EM+  G                        KK+F  M
Sbjct: 379 SYTTLINGYCKTWKVKEAMNLYNEMLQVGKSPNVTTYGTLLKGLFQKGKVGDAKKLFGVM 438

Query: 236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF 295
           K   V   +    IF+DGLCKN  + E MELF  L+  N +L +E ++ LI G CK G  
Sbjct: 439 KTYGVSANSQIYGIFLDGLCKNDCLFEAMELFNELKSYNFKLNIENYSCLIDGLCKAGKL 498

Query: 296 EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL 355
           E A ELF KLS + L  DVV YNI+IH   K GQ+   N L   MEENGC  D+  +NTL
Sbjct: 499 ETAWELFEKLSQEGLQPDVVTYNIMIHGFCKVGQVDNANILFEKMEENGCTPDIIAYNTL 558

Query: 356 MISF 359
           +  F
Sbjct: 559 LCGF 562

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462477|ref|XP_004148967.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  285 bits (729), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 171/420 (40%), Positives = 226/420 (53%), Gaps = 59/420 (14%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           ++V   L      +RR Y P + VT+ +LIKG CME  I  A+ L  +M   GC PN  T
Sbjct: 145 NRVGEGLAVMAGILRRGYIP-DIVTYTTLIKGLCMEHRISKAALLFTRMQKLGCTPNAIT 203

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
             TL+ GL RTGN+++ LKLHQEM+N    +G  +KP V  Y  +ID LCKDR  D+ +D
Sbjct: 204 YGTLMKGLCRTGNISIALKLHQEMLNDSSLYGINFKPVVISYSIIIDALCKDRREDEARD 263

Query: 122 LFMEMK---------------------------DKGINANTL--------LCKKTKLVEA 146
           LF EMK                           ++G+  N +        LCK+ K++EA
Sbjct: 264 LFEEMKVQGMTPTVISYTSLMWEEAKRLFNEMVNQGVQPNVVTFNVLIDVLCKEGKVIEA 323

Query: 147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLING 206
             LLE+M+QRG+ P + TY  L+ G+CLVG +N A  LF SM  KG  PDV  Y+VLING
Sbjct: 324 KDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCEPDVICYTVLING 383

Query: 207 YCKNFNVEEAMNVSREMILNG-----------------------FKKIFNEMKLCNVVPE 243
           YCK   VEEAM +   M+  G                        KK+F  MK+  +  +
Sbjct: 384 YCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVMKVYGIPGD 443

Query: 244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFN 303
            +   IF++GLCKNG + E MELF  L+  N +L +E FN LI G CK G  E A ELF 
Sbjct: 444 LYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKLETAWELFE 503

Query: 304 KLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE 363
           KL  + L  DVV YNI+IH   + GQ+ K N L   ME+NGC  D  T+ TL+  F + +
Sbjct: 504 KLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATLIRGFFESK 563

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520323|ref|XP_004167183.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  282 bits (721), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 171/428 (39%), Positives = 226/428 (52%), Gaps = 67/428 (15%)

Query: 2   SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT 61
           ++V   L      +RR Y P + VT+ +LIKG CME  I  A+ L  +M   GC PN  T
Sbjct: 145 NRVGEGLAVMAGILRRGYIP-DIVTYTTLIKGLCMEHRISKAALLFTRMQKLGCTPNAIT 203

Query: 62  CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD 121
             TL+ GL RTGN+++ LKLHQEM+N    +G  +KP V  Y  +ID LCKDR  D+ +D
Sbjct: 204 YGTLMKGLCRTGNISIALKLHQEMLNDSSLYGINFKPVVISYSIIIDALCKDRREDEARD 263

Query: 122 LFMEMK-----------------------------------DKGINANTL--------LC 138
           LF EMK                                   ++G+  N +        LC
Sbjct: 264 LFEEMKVQGMTPTVISYTSLIHGFCCGGKWEEAKRLFNEMVNQGVQPNVVTFNVLIDVLC 323

Query: 139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVF 198
           K+ K++EA  LLE+M+QRG+ P + TY  L+ G+CLVG +N A  LF SM  KG  PDV 
Sbjct: 324 KEGKVIEAKDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCEPDVI 383

Query: 199 SYSVLINGYCKNFNVEEAMNVSREMILNG-----------------------FKKIFNEM 235
            Y+VLINGYCK   VEEAM +   M+  G                        KK+F  M
Sbjct: 384 CYTVLINGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVM 443

Query: 236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF 295
           K+  +  + +   IF++GLCKNG + E MELF  L+  N +L +E FN LI G CK G  
Sbjct: 444 KVYGIPGDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKL 503

Query: 296 EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL 355
           E A ELF KL  + L  DVV YNI+IH   + GQ+ K N L   ME+NGC  D  T+ TL
Sbjct: 504 ETAWELFEKLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATL 563

Query: 356 MISFLQKE 363
           +  F + +
Sbjct: 564 IRGFFESK 571

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559961|ref|XP_002520999.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539836|gb|EEF41416.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  269 bits (688), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 168/415 (40%), Positives = 225/415 (54%), Gaps = 64/415 (15%)

Query: 3   KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC 62
           +V    + FG  +R+ YRP N  TF +L+KG C+EG I +A ++ K M  F CRP+  TC
Sbjct: 157 RVFEGFVVFGMILRKGYRP-NTRTFTNLVKGLCLEGKIGEAVRVFKIMGVFDCRPSAITC 215

Query: 63  DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
             LI+GL RTGN    LKLH+ M+NG  DFG   KP V  Y  +ID LCKD LV++ K+ 
Sbjct: 216 GVLISGLCRTGNTCNALKLHEAMINGNSDFGINCKPTVVSYSCIIDSLCKDGLVERAKEF 275

Query: 123 FMEMKDKGINANTL-------------------------------------------LCK 139
           F+EMK+KGI  N +                                           LCK
Sbjct: 276 FVEMKEKGIFPNVVTYTSLLHGLCSASEWEEAKRLFIEMVDHGLLPDVVTFSVLIGALCK 335

Query: 140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS 199
             K+ EA+ L +LM+QR + P   TY  L+ GYCL G V+    +F SM  K    D  S
Sbjct: 336 VGKVKEASGLFDLMVQRYVEPSTRTYNILIEGYCLAGMVDEGKKIFLSMVNKRCQHDAGS 395

Query: 200 YSVLINGYCKNFNVEEAMNVSREMILNGF-------------KKIFNEMKLCNVVPETFT 246
           YS+L+  YCK+  V  AM + REM+  G              +K+F E++  ++V ++ +
Sbjct: 396 YSILMKAYCKDSEVHGAMILYREMMDRGIQPTVITYSKVGDARKLFGEIQFQDMVLDSIS 455

Query: 247 C---NIFIDGLCKNGHVLEVMELFPTLEISNCELF--VEIFNSLIRGCCKFGIFEIASEL 301
               N+++DGLCKNG V E +++F  LE  NC+    V IFNSLI G C+    EIA EL
Sbjct: 456 YSIYNVYLDGLCKNGCVSEALDVFYGLE--NCKFASNVAIFNSLINGMCRSEKLEIAWEL 513

Query: 302 FNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
           FN+L  + L  DVV Y I+I+ L K GQ +K   L L MEE GCA +V TFNTLM
Sbjct: 514 FNRLCNEALQPDVVTYTIMIYGLCKVGQPQKAYDLFLEMEEKGCAPNVVTFNTLM 568

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771990|emb|CAN69053.1| hypothetical protein VITISV_022963 [Vitis vinifera]

 Score =  243 bits (620), Expect = 9e-62,   Method: Composition-based stats.
 Identities = 142/421 (33%), Positives = 213/421 (50%), Gaps = 73/421 (17%)

Query: 7   ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI 66
           A       ++  ++P +  TF +LI+G C+EG I +A  L  KM   G +PNV T  TLI
Sbjct: 119 AFSVLAKILKLGHQP-DPTTFTTLIRGLCVEGKIGEALHLFDKMIDEGFQPNVVTYGTLI 177

Query: 67  TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM 126
            GL + GN +  ++L + M  G        +P+V  Y S+ID LCKDR V +  +LF +M
Sbjct: 178 NGLCKVGNTSAAIRLLRSMEQGN------CQPDVVIYTSIIDSLCKDRQVTEAFNLFSQM 231

Query: 127 KDKGINANTL-------------------------------------------LCKKTKL 143
             +GI+ +                                             LCK+ K+
Sbjct: 232 VGQGISPDIFTYTSLVHALCNLCEWKHVTTLLNQMVNSKILPDVVIFSTVVDALCKEGKV 291

Query: 144 VEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVL 203
            EA+ ++++M+QRG+ P + TYT L++G+CL  +++ A+ +FD M RKGF PDV SY+ L
Sbjct: 292 TEAHEIVDMMIQRGVEPDVVTYTTLMDGHCLQSEMDEAVKVFDMMVRKGFAPDVISYTTL 351

Query: 204 INGYCKNFNVEEAMNVSREMI-----------------------LNGFKKIFNEMKLCNV 240
           INGYCK   +++AM +  EM                        L     +F+EM     
Sbjct: 352 INGYCKIHKIDKAMYLFEEMCRKEWIPDTKTYNTLMYGLCHVGRLQDAIALFHEMVARGQ 411

Query: 241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASE 300
           +P+  T +I +D LCKN H+ E M L   +E SN    ++++N +I G C+ G  E A +
Sbjct: 412 MPDLVTYSILLDSLCKNRHLEEAMALLKAIEASNLNPDIQVYNIIIDGMCRAGELEAARD 471

Query: 301 LFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
           LF+ LS K L   V  YNI+IH L K G + + N L + M+ N C+ D  T+NT+   FL
Sbjct: 472 LFSNLSSKGLHPSVWTYNIMIHGLCKRGLLNEANKLFMEMDGNDCSPDGCTYNTIARGFL 531

Query: 361 Q 361
           Q
Sbjct: 532 Q 532

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	363
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.876	0.513	0.319	2.5e-42
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.928	0.614	0.304	2.6e-40
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.884	0.498	0.305	4.8e-40
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.884	0.503	0.314	7.2e-40
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.867	0.421	0.314	1.3e-39
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.892	0.514	0.301	1.4e-39
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.884	0.425	0.318	2.8e-39
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.884	0.516	0.305	3.5e-39
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.925	0.666	0.320	3.7e-39
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.870	0.432	0.327	6.5e-38

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 448 (162.8 bits), Expect = 2.5e-42, P = 2.5e-42
 Identities = 110/344 (31%), Positives = 180/344 (52%)

Query:    25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQE 84
             V ++ +I   C +G+  DA  L  +M   G + +V T  +LI GL   G  +   K+ +E
Sbjct:   246 VQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLRE 305

Query:    85 MVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL-------- 136
             M+      G    P+V  + +LID   K+  + + K+L+ EM  +GI  +T+        
Sbjct:   306 MI------GRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDG 359

Query:   137 LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD 196
              CK+  L EAN++ +LM+ +G  P I TY+ L+N YC   +V+  + LF  ++ KG +P+
Sbjct:   360 FCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPN 419

Query:   197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK 256
               +Y+ L+ G+C++              LN  K++F EM    V P   T  I +DGLC 
Sbjct:   420 TITYNTLVLGFCQSGK------------LNAAKELFQEMVSRGVPPSVVTYGILLDGLCD 467

Query:   257 NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVA 316
             NG + + +E+F  ++ S   L + I+N +I G C     + A  LF  LS K +  DVV 
Sbjct:   468 NGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVT 527

Query:   317 YNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
             YN++I  L K+G + + + L   M+E+GC  D  T+N L+ + L
Sbjct:   528 YNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHL 571

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026207 AT1G62680 [Arabidopsis thaliana (taxid:3702)]

 Score = 429 (156.1 bits), Expect = 2.6e-40, P = 2.6e-40
 Identities = 111/364 (30%), Positives = 172/364 (47%)

Query:     7 ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI 66
             AL   G  ++  Y P + VT  SL+ GFC    + DA  LV KM   G +P++   + +I
Sbjct:   139 ALSILGKMLKLGYEP-DRVTIGSLVNGFCRRNRVSDAVSLVDKMVEIGYKPDIVAYNAII 197

Query:    67 TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM 126
               L +T  +N      +E+     +  GI +PNV  Y +L++GLC          L  +M
Sbjct:   198 DSLCKTKRVNDAFDFFKEI-----ERKGI-RPNVVTYTALVNGLCNSSRWSDAARLLSDM 251

Query:   127 KDKGINANTL--------LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV 178
               K I  N +          K  K++EA  L E M++  ++P I TY+ L+NG CL  ++
Sbjct:   252 IKKKITPNVITYSALLDAFVKNGKVLEAKELFEEMVRMSIDPDIVTYSSLINGLCLHDRI 311

Query:   179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC 238
             + A  +FD M  KG + DV SY+ LING+CK   VE+ M            K+F EM   
Sbjct:   312 DEANQMFDLMVSKGCLADVVSYNTLINGFCKAKRVEDGM------------KLFREMSQR 359

Query:   239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA 298
              +V  T T N  I G  + G V +  E F  ++       +  +N L+ G C  G  E A
Sbjct:   360 GLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDIWTYNILLGGLCDNGELEKA 419

Query:   299 SELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS 358
               +F  +  + +  D+V Y  +I  + K G++++   L  S+   G   D+ T+ T+M  
Sbjct:   420 LVIFEDMQKREMDLDIVTYTTVIRGMCKTGKVEEAWSLFCSLSLKGLKPDIVTYTTMMSG 479

Query:   359 FLQK 362
                K
Sbjct:   480 LCTK 483

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 429 (156.1 bits), Expect = 4.8e-40, P = 4.8e-40
 Identities = 106/347 (30%), Positives = 178/347 (51%)

Query:    22 LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL 81
             L+ V ++ +I G C +G++ +A  L  +M   G + ++ T +TLI G    G  +   KL
Sbjct:   261 LDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKL 320

Query:    82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL----- 136
              ++M+           PNV  +  LID   K+  + +   L  EM  +GI  NT+     
Sbjct:   321 LRDMIKRK------ISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSL 374

Query:   137 ---LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF 193
                 CK+ +L EA ++++LM+ +G +P I T+  L+NGYC   +++  + LF  M+ +G 
Sbjct:   375 IDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGV 434

Query:   194 MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG 253
             + +  +Y+ L+ G+C++  +E A            KK+F EM    V P+  +  I +DG
Sbjct:   435 IANTVTYNTLVQGFCQSGKLEVA------------KKLFQEMVSRRVRPDIVSYKILLDG 482

Query:   254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD 313
             LC NG + + +E+F  +E S  EL + I+  +I G C     + A +LF  L  K +  D
Sbjct:   483 LCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLD 542

Query:   314 VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
               AYNI+I  L ++  + K + L   M E G A D  T+N L+ + L
Sbjct:   543 ARAYNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRAHL 589

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 427 (155.4 bits), Expect = 7.2e-40, P = 7.2e-40
 Identities = 109/347 (31%), Positives = 177/347 (51%)

Query:    22 LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL 81
             L+ V ++ +I G C  G++ +A  L  +M   G   N+ T + LI G    G  +   KL
Sbjct:   261 LDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDDGAKL 320

Query:    82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL----- 136
              ++M+           PNV  +  LID   K+  + + ++L  EM  +GI  +T+     
Sbjct:   321 LRDMIKRK------INPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTSL 374

Query:   137 ---LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF 193
                 CK+  L +AN++++LM+ +G +P I T+  L+NGYC   +++  + LF  M+ +G 
Sbjct:   375 IDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSLRGV 434

Query:   194 MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG 253
             + D  +Y+ LI G+C+       +NV++E+        F EM    V P   T  I +DG
Sbjct:   435 VADTVTYNTLIQGFCELGK----LNVAKEL--------FQEMVSRKVPPNIVTYKILLDG 482

Query:   254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD 313
             LC NG   + +E+F  +E S  EL + I+N +I G C     + A +LF  L  K +   
Sbjct:   483 LCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPG 542

Query:   314 VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
             V  YNI+I  L K+G + +   L   MEE+G A D  T+N L+ + L
Sbjct:   543 VKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAHL 589

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 429 (156.1 bits), Expect = 1.3e-39, P = 1.3e-39
 Identities = 108/343 (31%), Positives = 182/343 (53%)

Query:    23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH 82
             N +++N +I G C EG +++ S ++ +M   G   +  T +TLI G  + GN +  L +H
Sbjct:   274 NLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMH 333

Query:    83 QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINAN-----TLL 137
              EM+       G+  P+V  Y SLI  +CK   +++  +   +M+ +G+  N     TL+
Sbjct:   334 AEMLRH-----GL-TPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLV 387

Query:   138 ---CKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM 194
                 +K  + EA R+L  M   G +P + TY  L+NG+C+ GK+  AIA+ + M  KG  
Sbjct:   388 DGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLS 447

Query:   195 PDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL 254
             PDV SYS +++G+C++++V+EA+ V REM+  G K            P+T T +  I G 
Sbjct:   448 PDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIK------------PDTITYSSLIQGF 495

Query:   255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV 314
             C+     E  +L+  +           + +LI   C  G  E A +L N++  K ++ DV
Sbjct:   496 CEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDV 555

Query:   315 VAYNILIHALGKEGQIKKENYLLLSM-EENGCALDVDTFNTLM 356
             V Y++LI+ L K+ + ++   LLL +  E     DV T++TL+
Sbjct:   556 VTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDV-TYHTLI 597

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 424 (154.3 bits), Expect = 1.4e-39, P = 1.4e-39
 Identities = 106/352 (30%), Positives = 181/352 (51%)

Query:    19 YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLT 78
             Y+P N VTFN+LI G  +     +A  L+ +M   GC+P++ T   ++ GL + G+ +L 
Sbjct:   182 YQP-NTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLA 240

Query:    79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL-- 136
               L  +M  G        +P V  Y ++IDGLCK + +D   +LF EM+ KGI  N +  
Sbjct:   241 FNLLNKMEQGK------LEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTY 294

Query:   137 ------LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMAR 190
                   LC   +  +A+RLL  M++R +NP +FT++ L++ +   GK+  A  L+D M +
Sbjct:   295 SSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVK 354

Query:   191 KGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIF 250
             +   P + +YS LING+C +  ++EA            K++F  M   +  P+  T N  
Sbjct:   355 RSIDPSIVTYSSLINGFCMHDRLDEA------------KQMFEFMVSKHCFPDVVTYNTL 402

Query:   251 IDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL 310
             I G CK   V E ME+F  +           +N LI+G  + G  ++A E+F ++    +
Sbjct:   403 IKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGV 462

Query:   311 VADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK 362
               +++ YN L+  L K G+++K   +   ++ +     + T+N +MI  + K
Sbjct:   463 PPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYN-IMIEGMCK 513

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 426 (155.0 bits), Expect = 2.8e-39, P = 2.8e-39
 Identities = 111/349 (31%), Positives = 183/349 (52%)

Query:    23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATF-GCRPNVTTCDTLITGLRRTGNMNLTLKL 81
             ++V+ N ++ GFC EG + DA   +++M+   G  P+  T +TL+ GL + G++   +++
Sbjct:   258 SNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEI 317

Query:    82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM--KDKGINA---NTL 136
                M+       G Y P+V+ Y S+I GLCK   V +  ++  +M  +D   N    NTL
Sbjct:   318 MDVMLQE-----G-YDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTL 371

Query:   137 ---LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF 193
                LCK+ ++ EA  L  ++  +G+ P + T+  L+ G CL     VA+ LF+ M  KG 
Sbjct:   372 ISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGC 431

Query:   194 MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG 253
              PD F+Y++LI+  C    ++EA+N+ ++M L+G  +        +V+    T N  IDG
Sbjct:   432 EPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCAR--------SVI----TYNTLIDG 479

Query:   254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD 313
              CK     E  E+F  +E+         +N+LI G CK    E A++L +++  +    D
Sbjct:   480 FCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPD 539

Query:   314 VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK 362
                YN L+    + G IKK   ++ +M  NGC  D+ T+ TL IS L K
Sbjct:   540 KYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTL-ISGLCK 587

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:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 420 (152.9 bits), Expect = 3.5e-39, P = 3.5e-39
 Identities = 106/347 (30%), Positives = 180/347 (51%)

Query:    22 LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL 81
             L+ V ++ +I G C +G++ +A  L  +M   G + ++    TLI G    G  +   KL
Sbjct:   245 LDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFCYAGRWDDGAKL 304

Query:    82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL----- 136
              ++M+           P+V  + +LID   K+  + + ++L  EM  +GI+ +T+     
Sbjct:   305 LRDMIKRK------ITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTVTYTSL 358

Query:   137 ---LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF 193
                 CK+ +L +AN +L+LM+ +G  P I T+  L+NGYC    ++  + LF  M+ +G 
Sbjct:   359 IDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNILINGYCKANLIDDGLELFRKMSLRGV 418

Query:   194 MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG 253
             + D  +Y+ LI G+C+   +E A            K++F EM    V P+  +  I +DG
Sbjct:   419 VADTVTYNTLIQGFCELGKLEVA------------KELFQEMVSRRVRPDIVSYKILLDG 466

Query:   254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD 313
             LC NG   + +E+F  +E S  EL + I+N +I G C     + A +LF  L  K +  D
Sbjct:   467 LCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPD 526

Query:   314 VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFL 360
             V  YNI+I  L K+G + + + L   MEE+G + +  T+N L+ + L
Sbjct:   527 VKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRAHL 573

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2174165 AT5G16640 [Arabidopsis thaliana (taxid:3702)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 117/365 (32%), Positives = 177/365 (48%)

Query:     7 ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI 66
             AL   G  I+  + P + VTF SL+ GFC    + DA  +  +M   G +PNV   +T+I
Sbjct:   135 ALSFLGKMIKLGHEP-SIVTFGSLLNGFCRGDRVYDALYMFDQMVGMGYKPNVVIYNTII 193

Query:    67 TGLRRTGNMNLTLKLHQEMV-NGMGDFGGIYKPNVFCYGSLIDGLCKD-RLVDQTKDLFM 124
              GL ++  ++  L L   M  +G+G       P+V  Y SLI GLC   R  D T+ +  
Sbjct:   194 DGLCKSKQVDNALDLLNRMEKDGIG-------PDVVTYNSLISGLCSSGRWSDATRMVSC 246

Query:   125 ----EMKDKGINANTLL--C-KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK 177
                 E+       N L+  C K+ ++ EA    E M++R L+P I TY+ L+ G C+  +
Sbjct:   247 MTKREIYPDVFTFNALIDACVKEGRVSEAEEFYEEMIRRSLDPDIVTYSLLIYGLCMYSR 306

Query:   178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKL 237
             ++ A  +F  M  KG  PDV +YS+LINGYCK+  VE  M            K+F EM  
Sbjct:   307 LDEAEEMFGFMVSKGCFPDVVTYSILINGYCKSKKVEHGM------------KLFCEMSQ 354

Query:   238 CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEI 297
               VV  T T  I I G C+ G +    E+F  +        +  +N L+ G C  G  E 
Sbjct:   355 RGVVRNTVTYTILIQGYCRAGKLNVAEEIFRRMVFCGVHPNIITYNVLLHGLCDNGKIEK 414

Query:   298 ASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI 357
             A  +   +    + AD+V YNI+I  + K G++     +  S+   G   D+ T+ T+M+
Sbjct:   415 ALVILADMQKNGMDADIVTYNIIIRGMCKAGEVADAWDIYCSLNCQGLMPDIWTYTTMML 474

Query:   358 SFLQK 362
                +K
Sbjct:   475 GLYKK 479

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 413 (150.4 bits), Expect = 6.5e-38, P = 6.5e-38
 Identities = 111/339 (32%), Positives = 172/339 (50%)

Query:    23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH 82
             N V + +LI        + +A QL+++M   GC P+  T + +I GL +   +N   K  
Sbjct:   251 NSVIYQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAK-- 308

Query:    83 QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM-KDKGINANTLL---C 138
               MVN M   G  + P+   YG L++GLCK   VD  KDLF  + K + +  NTL+    
Sbjct:   309 --MVNRMLIRG--FAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPKPEIVIFNTLIHGFV 364

Query:   139 KKTKLVEANRLL-ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV 197
                +L +A  +L +++   G+ P + TY  L+ GY   G V +A+ +   M  KG  P+V
Sbjct:   365 THGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNV 424

Query:   198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN 257
             +SY++L++G+CK   ++EA NV  EM  +G K            P T   N  I   CK 
Sbjct:   425 YSYTILVDGFCKLGKIDEAYNVLNEMSADGLK------------PNTVGFNCLISAFCKE 472

Query:   258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAY 317
               + E +E+F  +    C+  V  FNSLI G C+    + A  L   +  + +VA+ V Y
Sbjct:   473 HRIPEAVEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTY 532

Query:   318 NILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
             N LI+A  + G+IK+   L+  M   G  LD  T+N+L+
Sbjct:   533 NTLINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLI 571

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	363
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.004

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

 Score = 65.1 bits (160), Expect = 5e-14
 Identities = 24/50 (48%), Positives = 36/50 (72%)

Query: 160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK 209
           P + TY  L++GYC  GKV  A+ LF+ M ++G  P+V++YS+LI+G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 60.9 bits (149), Expect = 2e-12
 Identities = 29/62 (46%), Positives = 37/62 (59%), Gaps = 12/62 (19%)

Query: 195 PDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL 254
           PDV +Y+ LI+GYCK   VEEA+            K+FNEMK   + P  +T +I IDGL
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEAL------------KLFNEMKKRGIKPNVYTYSILIDGL 48

Query: 255 CK 256
           CK
Sbjct: 49  CK 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 = 61.8 bits (150), Expect = 2e-10
 Identities = 78/375 (20%), Positives = 151/375 (40%), Gaps = 75/375 (20%)

Query: 26  TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEM 85
           TFN L+       +I  A ++++ +   G + +     TLI+   ++G ++   ++  EM
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 86  VNGMGDFGGIYKPNVFCYGSLIDGLCK---------------------DRL--------- 115
           VN      G+ + NV  +G+LIDG  +                     DR+         
Sbjct: 499 VNA-----GV-EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 116 -----VDQTKDLFMEMKDKG-------INANTLLCKKTKLVEANRLLEL--MMQ----RG 157
                VD+  D+  EMK +        I    L+       + +R  E+  M+     +G
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 158 LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLIN--GYCKNFNVEE 215
              V   YT  +N     G  + A++++D M +KG  PD   +S L++  G+  +  +++
Sbjct: 613 TPEV---YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD--LDK 667

Query: 216 AMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN-GHVLEVMELFPTLEISN 274
           A  + ++    G       +KL  V   +        G C N  +  + +EL+  ++   
Sbjct: 668 AFEILQDARKQG-------IKLGTVSYSSLM------GACSNAKNWKKALELYEDIKSIK 714

Query: 275 CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKEN 334
               V   N+LI   C+      A E+ +++    L  + + Y+IL+ A  ++       
Sbjct: 715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGL 774

Query: 335 YLLLSMEENGCALDV 349
            LL   +E+G   ++
Sbjct: 775 DLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 50.9 bits (123), Expect = 7e-09
 Identities = 20/47 (42%), Positives = 30/47 (63%)

Query: 23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL 69
          + VT+N+LI G+C +G + +A +L  +M   G +PNV T   LI GL
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 49.3 bits (119), Expect = 3e-08
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 313 DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
           DVV YN LI    K+G++++   L   M++ G   +V T++ L+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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 = 48.6 bits (117), Expect = 4e-08
 Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 27/76 (35%)

Query: 98  PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRG 157
           P+V  Y +LIDG CK   V++   LF EMK +GI  N                       
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPN----------------------- 37

Query: 158 LNPVIFTYTPLLNGYC 173
               ++TY+ L++G C
Sbjct: 38  ----VYTYSILIDGLC 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 = 47.0 bits (113), Expect = 1e-07
 Identities = 19/45 (42%), Positives = 28/45 (62%)

Query: 282 FNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK 326
           +N+LI G CK G  E A +LFN++  + +  +V  Y+ILI  L K
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 46.6 bits (112), Expect = 2e-07
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 191 KGFMPDVFSYSVLINGYCKNFNVEEAMNVSREM 223
           KG  PDV +Y+ LI+G C+   V+EA+ +  EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 46.6 bits (112), Expect = 3e-07
 Identities = 27/56 (48%), Positives = 32/56 (57%), Gaps = 6/56 (10%)

Query: 57  PNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK 112
           P+V T +TLI G  + G +   LKL  EM        GI KPNV+ Y  LIDGLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKK-----RGI-KPNVYTYSILIDGLCK 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 = 51.4 bits (123), Expect = 5e-07
 Identities = 50/236 (21%), Positives = 92/236 (38%), Gaps = 25/236 (10%)

Query: 146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLIN 205
           A R+L L+ + GL      YT L++     GKV+    +F  M   G   +V ++  LI+
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 206 GYCKNFNVEEAMNVSREMILNGFKK---IFN--------------------EMKLCN--V 240
           G  +   V +A      M     K    +FN                    EMK     +
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI 575

Query: 241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASE 300
            P+  T    +      G V    E++  +   N +   E++   +  C + G ++ A  
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 301 LFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM 356
           +++ +  K +  D V ++ L+   G  G + K   +L    + G  L   ++++LM
Sbjct: 636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

Length = 1060

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

 Score = 51.0 bits (122), Expect = 6e-07
 Identities = 64/322 (19%), Positives = 119/322 (36%), Gaps = 55/322 (17%)

Query: 23  NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH 82
           N  ++ ++I G    GN R+A  L ++M   G      T   ++      G+     +LH
Sbjct: 188 NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLH 247

Query: 83  QEMVN-GMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKT 141
             ++  G+         + F   +LID   K   ++  + +F  M +K   A        
Sbjct: 248 CCVLKTGVVG-------DTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA-------- 292

Query: 142 KLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYS 201
                                  +  +L GY L G    A+ L+  M   G   D F++S
Sbjct: 293 -----------------------WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS 329

Query: 202 VLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVL 261
           ++I  + +   +E A      +I  GF          ++V  T      +D   K G + 
Sbjct: 330 IMIRIFSRLALLEHAKQAHAGLIRTGFP--------LDIVANT----ALVDLYSKWGRME 377

Query: 262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI 321
           +   +F  +   N    +  +N+LI G    G    A E+F ++  + +  + V +  ++
Sbjct: 378 DARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVL 433

Query: 322 HALGKEGQIKKENYLLLSMEEN 343
            A    G  ++   +  SM EN
Sbjct: 434 SACRYSGLSEQGWEIFQSMSEN 455

Length = 697

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

 Score = 43.9 bits (105), Expect = 1e-06
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKM 50
            + VT+N+LI G C  G + +A +L+ +M
Sbjct: 4  KPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 49.1 bits (117), Expect = 2e-06
 Identities = 68/351 (19%), Positives = 135/351 (38%), Gaps = 49/351 (13%)

Query: 23  NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH 82
           + +T  S+I    + G+ R   ++   +   G   +V+ C++LI      G+     K+ 
Sbjct: 287 DLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKV- 345

Query: 83  QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLL----- 137
                    F  +   +   + ++I G  K+ L D+  + +  M+   ++ + +      
Sbjct: 346 ---------FSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

Query: 138 --CKKTKLVEAN-RLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM 194
             C     ++   +L EL  ++GL   +     L+  Y     ++ A+ +F ++  K   
Sbjct: 397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK--- 453

Query: 195 PDVFSYSVLINGYCKNFNVEEAMNVSREMI----------------------LNGFKKIF 232
            DV S++ +I G   N    EA+   R+M+                      L   K+I 
Sbjct: 454 -DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIH 512

Query: 233 NEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF 292
             +    +  + F  N  +D   + G +      F     ++ E  V  +N L+ G    
Sbjct: 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-----NSHEKDVVSWNILLTGYVAH 567

Query: 293 GIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN 343
           G   +A ELFN++    +  D V +  L+ A  + G + +      SMEE 
Sbjct: 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

Length = 857

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

 Score = 47.5 bits (113), Expect = 9e-06
 Identities = 78/360 (21%), Positives = 136/360 (37%), Gaps = 65/360 (18%)

Query: 28  NSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI----------TGLR------- 70
           NS ++  C  G +  A +L++ M       +      L            G R       
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 71  -------RTGNMNLTLKLH-QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL 122
                  R GN  L++ +   E+V+    FG + + ++F +  L+ G  K    D+   L
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 123 FMEMKDKGINAN--TLLCKKTKLVEANRLLELMMQRGLNPVIFTY---------TPLLNG 171
           +  M   G+  +  T  C    L     + +L   R ++  +  +           L+  
Sbjct: 175 YHRMLWAGVRPDVYTFPC---VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITM 231

Query: 172 YCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKI 231
           Y   G V  A  +FD M R+    D  S++ +I+GY +N    E + +   M        
Sbjct: 232 YVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMR--ELSVD 285

Query: 232 FNEMKLCNVVPETFTCNIFID-GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCC 290
            + M + +V      C +  D  L +  H   V   F   ++S C       NSLI+   
Sbjct: 286 PDLMTITSV---ISACELLGDERLGREMHGYVVKTGFAV-DVSVC-------NSLIQMYL 334

Query: 291 KFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK--ENYLLLSMEENGCALD 348
             G +  A ++F+++  K    D V++  +I    K G   K  E Y L  ME++  + D
Sbjct: 335 SLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYAL--MEQDNVSPD 388

Length = 857

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

 Score = 42.0 bits (100), Expect = 1e-05
 Identities = 19/50 (38%), Positives = 27/50 (54%)

Query: 242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK 291
           P+  T N  IDG CK G V E ++LF  ++    +  V  ++ LI G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 41.6 bits (99), Expect = 1e-05
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSM 188
           +GL P + TY  L++G C  G+V+ A+ L D M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV 59
          VT+N+LI G C  G + +A +L K+M   G  P+V
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 44.9 bits (106), Expect = 6e-05
 Identities = 38/190 (20%), Positives = 79/190 (41%), Gaps = 18/190 (9%)

Query: 25  VTFNSLIKGFCMEGNIRDASQLVKKMATFGCR--PNVTTCDTLITGLRRTGNMNLTLKLH 82
           +T  +L+K     G +  A ++ + +  +  +  P V T    +    + G+ +  L ++
Sbjct: 580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT--IAVNSCSQKGDWDFALSIY 637

Query: 83  QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL------ 136
            +M        G+    VF + +L+D       +D+  ++  + + +GI   T+      
Sbjct: 638 DDMKKK-----GVKPDEVF-FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

Query: 137 -LCKKTKLVE-ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM 194
             C   K  + A  L E +    L P + T   L+   C   ++  A+ +   M R G  
Sbjct: 692 GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLC 751

Query: 195 PDVFSYSVLI 204
           P+  +YS+L+
Sbjct: 752 PNTITYSILL 761

Length = 1060

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

 Score = 39.6 bits (94), Expect = 6e-05
 Identities = 15/32 (46%), Positives = 21/32 (65%)

Query: 96  YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMK 127
            KP+V  Y +LIDGLC+   VD+  +L  EM+
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

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

 Score = 38.5 bits (91), Expect = 1e-04
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 239 NVVPETFTCNIFIDGLCKNGHVLEVMELF 267
            + P+  T N  IDGLC+ G V E +EL 
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELL 30

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 = 43.3 bits (102), Expect = 2e-04
 Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 6/119 (5%)

Query: 21  PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK 80
            L  V+++SL+       N + A +L + + +   RP V+T + LIT L     +   L 
Sbjct: 681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKAL- 739

Query: 81  LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCK 139
              E+++ M   G    PN   Y  L+    +    D   DL  + K+ GI  N ++C+
Sbjct: 740 ---EVLSEMKRLG--LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR 793

Length = 1060

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

 Score = 37.8 bits (89), Expect = 2e-04
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV 197
            TY  L++G C  G+V  A+ LF  M  +G  PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.8 bits (98), Expect = 6e-04
 Identities = 80/378 (21%), Positives = 150/378 (39%), Gaps = 44/378 (11%)

Query: 4   VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCD 63
           V+ A + F    RR     + +++N++I G+   G   +  +L   M      P++ T  
Sbjct: 238 VVSARLVFDRMPRR-----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT 292

Query: 64  TLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLF 123
           ++I+     G+  L  ++H  +V         +  +V    SLI          + + +F
Sbjct: 293 SVISACELLGDERLGREMHGYVVKTG------FAVDVSVCNSLIQMYLSLGSWGEAEKVF 346

Query: 124 MEMKDKGINANTLL---CKKTKLVE-ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN 179
             M+ K   + T +    +K  L + A     LM Q  ++P   T   +L+    +G ++
Sbjct: 347 SRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLD 406

Query: 180 VAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREM----------ILNGFK 229
           V + L +   RKG +  V   + LI  Y K   +++A+ V   +          I+ G +
Sbjct: 407 VGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLR 466

Query: 230 ---------KIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVE 280
                      F +M L  + P + T    +    + G ++   E+     +    +  +
Sbjct: 467 LNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHA--HVLRTGIGFD 523

Query: 281 IF--NSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLL 338
            F  N+L+    + G    A   FN  S +    DVV++NIL+      G+      L  
Sbjct: 524 GFLPNALLDLYVRCGRMNYAWNQFN--SHEK---DVVSWNILLTGYVAHGKGSMAVELFN 578

Query: 339 SMEENGCALDVDTFNTLM 356
            M E+G   D  TF +L+
Sbjct: 579 RMVESGVNPDEVTFISLL 596

Length = 857

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

 Score = 36.7 bits (86), Expect = 6e-04
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGC 55
          VT+NSLI G+C  G + +A +L K+M   G 
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFK 229
            +Y+ LI+G CK   VEEA+ + +EM   G +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 16/35 (45%), Positives = 23/35 (65%)

Query: 101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT 135
             Y +LIDGLCK   V++  +LF EMK++GI  + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 34.7 bits (81), Expect = 0.003
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI 131
             Y SLI G CK   +++  +LF EMK+KG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.4 bits (80), Expect = 0.003
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 198 FSYSVLINGYCKNFNVEEAMNVSREMILNGF 228
            +Y+ LI+GYCK   +EEA+ + +EM   G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.1 bits (79), Expect = 0.004
 Identities = 8/33 (24%), Positives = 17/33 (51%)

Query: 25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRP 57
           T+N+L+      G+   A  ++++M   G +P
Sbjct: 2  ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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	363
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.95
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.78
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.78
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.77
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
KOG2076	895	consensus RNA polymerase III transcription factor	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
PRK14574	822	hmsH outer membrane protein; Provisional	99.72
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.71
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.71
KOG2003	840	consensus TPR repeat-containing protein [General f	99.7
KOG1126	638	consensus DNA-binding cell division cycle control	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.65
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.62
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.61
PRK12370	553	invasion protein regulator; Provisional	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.56
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.56
PF13041	50	PPR_2: PPR repeat family	99.54
PRK12370	553	invasion protein regulator; Provisional	99.54
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.54
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.53
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.53
KOG2076	895	consensus RNA polymerase III transcription factor	99.53
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.52
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.51
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.51
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.5
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.49
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.48
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.47
KOG1129	478	consensus TPR repeat-containing protein [General f	99.47
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.47
PF13041	50	PPR_2: PPR repeat family	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.45
KOG1129	478	consensus TPR repeat-containing protein [General f	99.44
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.43
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.42
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.4
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.34
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.3
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.29
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.26
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.26
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.23
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.19
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.19
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.18
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.16
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.08
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.08
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.06
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.06
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.05
KOG1125	579	consensus TPR repeat-containing protein [General f	99.05
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.0
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.0
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.98
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.98
PLN02789	320	farnesyltranstransferase	98.97
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.97
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.94
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.93
KOG1125	579	consensus TPR repeat-containing protein [General f	98.93
PF12854	34	PPR_1: PPR repeat	98.92
PRK04841	903	transcriptional regulator MalT; Provisional	98.91
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.91
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.9
PLN02789	320	farnesyltranstransferase	98.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.89
PF12854	34	PPR_1: PPR repeat	98.88
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.87
PRK15359	144	type III secretion system chaperone protein SscB;	98.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.81
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.81
PRK04841	903	transcriptional regulator MalT; Provisional	98.79
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.79
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.77
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.76
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.76
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.75
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.72
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.69
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.68
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.68
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.67
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.62
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.59
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.58
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.57
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.55
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.55
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.53
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.53
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.52
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.49
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.49
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.49
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.47
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.47
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.45
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.45
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.45
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.45
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.43
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.39
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.35
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.34
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.33
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.3
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.25
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.24
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.22
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.22
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.22
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.2
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.2
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.18
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.18
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.18
KOG0553	304	consensus TPR repeat-containing protein [General f	98.18
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.17
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.16
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.14
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.13
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.13
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.13
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.1
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.06
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.03
KOG0553	304	consensus TPR repeat-containing protein [General f	98.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.99
PF12688	120	TPR_5: Tetratrico peptide repeat	97.99
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.99
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.96
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.96
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.94
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.94
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.92
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.92
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.91
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.9
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.87
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.86
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.84
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.83
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.81
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.78
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.75
PF12688	120	TPR_5: Tetratrico peptide repeat	97.73
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.72
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.66
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.56
PRK15331	165	chaperone protein SicA; Provisional	97.54
PRK10803	263	tol-pal system protein YbgF; Provisional	97.54
PF13371	73	TPR_9: Tetratricopeptide repeat	97.52
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.46
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.46
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.45
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.43
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.42
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.42
PRK10803	263	tol-pal system protein YbgF; Provisional	97.41
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.37
PF13371	73	TPR_9: Tetratricopeptide repeat	97.34
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.28
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.24
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.24
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.23
PRK15331	165	chaperone protein SicA; Provisional	97.19
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.16
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.15
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.13
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.08
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.08
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.02
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.9
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.85
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.85
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.8
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.78
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.74
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.72
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.7
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.68
KOG3941	406	consensus Intermediate in Toll signal transduction	96.61
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.58
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.57
KOG1585	308	consensus Protein required for fusion of vesicles	96.56
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.49
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.44
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.38
PF13428	44	TPR_14: Tetratricopeptide repeat	96.23
KOG4555	175	consensus TPR repeat-containing protein [Function	96.21
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.16
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.13
PF13431	34	TPR_17: Tetratricopeptide repeat	96.06
KOG3941	406	consensus Intermediate in Toll signal transduction	96.01
PRK11906	458	transcriptional regulator; Provisional	95.98
PF13428	44	TPR_14: Tetratricopeptide repeat	95.93
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.86
KOG1258	577	consensus mRNA processing protein [RNA processing	95.82
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.82
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.78
PF13512	142	TPR_18: Tetratricopeptide repeat	95.76
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.75
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.64
PF13512	142	TPR_18: Tetratricopeptide repeat	95.6
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.57
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.57
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.34
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.29
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.27
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.2
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.14
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.1
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.05
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.02
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.96
KOG4555	175	consensus TPR repeat-containing protein [Function	94.93
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.91
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.89
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.63
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.58
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.34
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.32
PRK11906	458	transcriptional regulator; Provisional	94.31
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.3
PF13431	34	TPR_17: Tetratricopeptide repeat	94.29
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.28
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.19
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.15
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.12
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.1
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.06
KOG1585	308	consensus Protein required for fusion of vesicles	94.01
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.88
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.73
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.69
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.68
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.66
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.46
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.37
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.34
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.33
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.29
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.25
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.24
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.24
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.09
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.09
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	92.77
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.75
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.39
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.38
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.33
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.18
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.05
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	91.98
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.74
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.46
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.27
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.04
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.88
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.87
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	90.56
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.49
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.48
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.45
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.42
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.3
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	90.17
COG3947	361	Response regulator containing CheY-like receiver a	90.1
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.09
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.09
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.9
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.86
COG0457	291	NrfG FOG: TPR repeat [General function prediction	89.85
KOG1941	518	consensus Acetylcholine receptor-associated protei	89.71
KOG4234	271	consensus TPR repeat-containing protein [General f	89.59
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.41
KOG4234	271	consensus TPR repeat-containing protein [General f	89.18
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.63
COG0457	291	NrfG FOG: TPR repeat [General function prediction	88.14
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.04
PF13929	292	mRNA_stabil: mRNA stabilisation	87.87
PF13762	145	MNE1: Mitochondrial splicing apparatus component	87.6
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	87.48
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.46
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.03
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.9
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.9
KOG1586	288	consensus Protein required for fusion of vesicles	86.86
KOG2422	665	consensus Uncharacterized conserved protein [Funct	86.79
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	86.61
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.56
COG5159	421	RPN6 26S proteasome regulatory complex component [	86.44
COG3947	361	Response regulator containing CheY-like receiver a	86.34
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.09
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.86
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	85.74
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	85.67
KOG1550	552	consensus Extracellular protein SEL-1 and related	85.25
KOG2471	696	consensus TPR repeat-containing protein [General f	85.11
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.85
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	84.39
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	84.23
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	83.59
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	81.98
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.86
PRK09687	280	putative lyase; Provisional	81.77
PRK09687	280	putative lyase; Provisional	81.58
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	81.57
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	81.46
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	81.28
COG5187	412	RPN7 26S proteasome regulatory complex component,	81.24
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	80.37
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	80.18

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.5e-59  Score=424.92  Aligned_cols=331  Identities=18%  Similarity=0.262  Sum_probs=219.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      +..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.+      +.||..+
T Consensus       436 d~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~G------v~PdvvT  509 (1060)
T PLN03218        436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAG------VEANVHT  509 (1060)
T ss_pred             CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcC------CCCCHHH
Confidence            5566666666666666666666666666666666666666666666666666666666666666666      5666666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHHHHHH--cCCCCchhhHHHHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLELMMQ--RGLNPVIFTYTPLLNGY  172 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~  172 (363)
                      |+.+|.+|++.|++++|.++|++|.+.++.|+.        .+++.|++++|.++|++|..  .++.||..+|+.+|.+|
T Consensus       510 ynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay  589 (1060)
T PLN03218        510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC  589 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            666666666666666666666666666666664        55666666666666666654  45666666666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH-----------------------H
Q 044256          173 CLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF-----------------------K  229 (363)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------------------~  229 (363)
                      ++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|..+|++|.+.|+                       .
T Consensus       590 ~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~  669 (1060)
T PLN03218        590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF  669 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            66666666666666666666666666666666666666666666655555544332                       3


Q ss_pred             HHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          230 KIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .+++.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|...++.||..+|+.||.+|++.|++++|.++|++|...|
T Consensus       670 ~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~G  749 (1060)
T PLN03218        670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG  749 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            55666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          310 LVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       310 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      +.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|++|+..|
T Consensus       750 i~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc  799 (1060)
T PLN03218        750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC  799 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            66666666666666666666666666666666666666666666666443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.6e-59  Score=423.12  Aligned_cols=345  Identities=17%  Similarity=0.264  Sum_probs=317.2

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|.++|+.|.+.|+.| |..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.+
T Consensus       450 ~g~~e~A~~lf~~M~~~Gl~p-D~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~  528 (1060)
T PLN03218        450 SQDIDGALRVLRLVQEAGLKA-DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG  528 (1060)
T ss_pred             CcCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHH
Confidence            478999999999999999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCcch--------hhhccCChHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD--KGINANT--------LLCKKTKLVEANRLL  150 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~--------~~~~~~~~~~a~~~~  150 (363)
                      +|+.|.+.+      +.||..+|+.+|.+|++.|++++|.++|++|..  .++.|+.        .+++.|++++|.++|
T Consensus       529 lf~~M~~~G------v~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        529 AYGIMRSKN------VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHcC------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999988      899999999999999999999999999999986  5678876        788999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH--
Q 044256          151 ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF--  228 (363)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  228 (363)
                      +.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.+.  
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999988764  


Q ss_pred             ---------------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHH
Q 044256          229 ---------------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIR  287 (363)
Q Consensus       229 ---------------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  287 (363)
                                           ..+|+.|...|+.||..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence                                 67999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc--CCCCCHHHHHH
Q 044256          288 GCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN--GCALDVDTFNT  354 (363)
Q Consensus       288 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~  354 (363)
                      +|++.|++++|.+++++|.+.|+.||..+|+.++..|.  +++++|..+.+.+...  |...+...|..
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~~g~~~~~n~w~~  829 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFDSGRPQIENKWTS  829 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhhccccccccchHH
Confidence            99999999999999999999999999999999997654  3577777766555532  22333344544

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

Probab=100.00  E-value=3.3e-53  Score=382.73  Aligned_cols=343  Identities=18%  Similarity=0.253  Sum_probs=218.4

Q ss_pred             ChhhhhHHHHHHHHHHcC-CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRC-YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~-~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|++++|+++|+.|...+ ..| +..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.++.+|++.|+++.|.
T Consensus       100 ~g~~~~Al~~f~~m~~~~~~~~-~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  178 (697)
T PLN03081        100 CGRHREALELFEILEAGCPFTL-PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDAR  178 (697)
T ss_pred             CCCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHH
Confidence            378899999999998765 556 999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHH
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLE  151 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~  151 (363)
                      ++|++|.          .||..+||.++.+|++.|++++|+++|++|.+.|+.|+.        .+...|..+.+.+++.
T Consensus       179 ~lf~~m~----------~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~  248 (697)
T PLN03081        179 RLFDEMP----------ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHC  248 (697)
T ss_pred             HHHhcCC----------CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHH
Confidence            9999884          578899999999999999999999999999988887764        3334444444444444


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH---
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF---  228 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---  228 (363)
                      .+.+.|+.||..+|+.|+.+|++.|++++|.++|+.|..    +|..+|+.++.+|++.|++++|..+|++|...++   
T Consensus       249 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        249 CVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            444444444444444444444444444444444444432    2444444444444444444444444444433222   


Q ss_pred             --------------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHH
Q 044256          229 --------------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRG  288 (363)
Q Consensus       229 --------------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  288 (363)
                                          .+++..|.+.|+.||..+|++++.+|++.|++++|.++|++|.    .||..+|++||.+
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~  400 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAG  400 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHH
Confidence                                2334444444455555555555555555555555555555543    2344555555555


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhhc
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE-NGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~ll~~~~~~  362 (363)
                      |++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|+.++|.++|+.|.+ .|+.|+..+|++++.+|++.
T Consensus       401 y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~  475 (697)
T PLN03081        401 YGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGRE  475 (697)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhc
Confidence            555555555555555555555555555555555555555555555555555543 25555555555555555544

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

Probab=100.00  E-value=3.6e-53  Score=382.49  Aligned_cols=338  Identities=20%  Similarity=0.255  Sum_probs=257.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      ++++.|.+++..|.+.|..| |+.+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+++
T Consensus       137 ~~~~~a~~l~~~m~~~g~~~-~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~l  211 (697)
T PLN03081        137 KSIRCVKAVYWHVESSGFEP-DQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFAL  211 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCc-chHHHHHHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHH
Confidence            56778888888888888888 88888888888888888888888888886    47888888888888888888888888


Q ss_pred             HHHHHhccCCCC-----------------------------CccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 044256           82 HQEMVNGMGDFG-----------------------------GIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN  132 (363)
Q Consensus        82 ~~~~~~~~~~~~-----------------------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  132 (363)
                      |++|.+.+...+                             .+..||..+|+.|+.+|++.|++++|.++|++|.+.+..
T Consensus       212 f~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~v  291 (697)
T PLN03081        212 FREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV  291 (697)
T ss_pred             HHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChh
Confidence            888877661100                             013344455555566666666666666666665433222


Q ss_pred             cch----hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 044256          133 ANT----LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYC  208 (363)
Q Consensus       133 ~~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  208 (363)
                      ...    .+++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|+
T Consensus       292 t~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~  371 (697)
T PLN03081        292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS  371 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHH
Confidence            211    4556666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             hcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHH
Q 044256          209 KNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRG  288 (363)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  288 (363)
                      +.|++++|.++|++|            .    .||..+|+.+|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+
T Consensus       372 k~G~~~~A~~vf~~m------------~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        372 KWGRMEDARNVFDRM------------P----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             HCCCHHHHHHHHHhC------------C----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            666666665555444            3    378889999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHhhh-CCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhcC
Q 044256          289 CCKFGIFEIASELFNKLSC-KNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  363 (363)
                      |++.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+++++|   ++.|+..+|++|+.+|..+|
T Consensus       436 ~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g  508 (697)
T PLN03081        436 CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHK  508 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcC
Confidence            9999999999999999976 689999999999999999999999999998765   57899999999999998765

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.5e-53  Score=389.36  Aligned_cols=350  Identities=21%  Similarity=0.275  Sum_probs=242.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|.++|+.|.    .| |..+||.+|.+|++.|++++|+++|++|...|+.||..||+.++.+|++.|+.+.+.++
T Consensus       236 g~~~~A~~lf~~m~----~~-d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l  310 (857)
T PLN03077        236 GDVVSARLVFDRMP----RR-DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREM  310 (857)
T ss_pred             CCHHHHHHHHhcCC----CC-CcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHH
Confidence            56667777777664    34 66677777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----hhhccCChHHHHHHHHHHHHcC
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----LLCKKTKLVEANRLLELMMQRG  157 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~~~a~~~~~~~~~~~  157 (363)
                      +..|.+.+      ..||..+|+.|+.+|++.|++++|.++|++|...+.....    .+++.|++++|.++|++|.+.|
T Consensus       311 ~~~~~~~g------~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g  384 (857)
T PLN03077        311 HGYVVKTG------FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDN  384 (857)
T ss_pred             HHHHHHhC------CccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhC
Confidence            77777666      6677777777777777777777777777776543322222    5666777777777777777777


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH---------
Q 044256          158 LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF---------  228 (363)
Q Consensus       158 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------  228 (363)
                      +.||..||+.++.+|++.|+++.|.++++.|.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.+.         
T Consensus       385 ~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~  464 (857)
T PLN03077        385 VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAG  464 (857)
T ss_pred             CCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777777666643321         


Q ss_pred             ----------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----------------------
Q 044256          229 ----------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----------------------  275 (363)
Q Consensus       229 ----------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------------------  275 (363)
                                ..+|++|.. ++.||..||+.++.+|++.|+++.+.+++..+.+.|+                       
T Consensus       465 ~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A  543 (857)
T PLN03077        465 LRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA  543 (857)
T ss_pred             HHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHH
Confidence                      344455543 3555555555555544444444444444444433333                       


Q ss_pred             -------cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHH-HcCCCC
Q 044256          276 -------ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSME-ENGCAL  347 (363)
Q Consensus       276 -------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~g~~p  347 (363)
                             .+|..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|++|. +.|+.|
T Consensus       544 ~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        544 WNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             HHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCC
Confidence                   467778888888888888888888888888888888888888888888888888888888888888 568888


Q ss_pred             CHHHHHHHHHHHhhcC
Q 044256          348 DVDTFNTLMISFLQKE  363 (363)
Q Consensus       348 ~~~~~~~ll~~~~~~~  363 (363)
                      +..+|++++.+|++.|
T Consensus       624 ~~~~y~~lv~~l~r~G  639 (857)
T PLN03077        624 NLKHYACVVDLLGRAG  639 (857)
T ss_pred             chHHHHHHHHHHHhCC
Confidence            8888888888888765

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-52  Score=385.96  Aligned_cols=345  Identities=20%  Similarity=0.300  Sum_probs=309.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+++|++|.+.|+.| |..+|+.++.+|.+.|+++.|.+++..|.+.|+.||..+|+.|+.+|++.|++++|.+
T Consensus       266 ~g~~~eAl~lf~~M~~~g~~P-d~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~  344 (857)
T PLN03077        266 NGECLEGLELFFTMRELSVDP-DLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEK  344 (857)
T ss_pred             CCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHH
Confidence            478999999999999999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLEL  152 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~  152 (363)
                      +|++|.          .||..+|+.+|.+|++.|++++|+++|++|.+.|+.|+.        .+++.|++++|.++++.
T Consensus       345 vf~~m~----------~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~  414 (857)
T PLN03077        345 VFSRME----------TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHEL  414 (857)
T ss_pred             HHhhCC----------CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHH
Confidence            999984          578899999999999999999999999999999999987        67789999999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH----
Q 044256          153 MMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF----  228 (363)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----  228 (363)
                      +.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+.+|++|...-.    
T Consensus       415 ~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~  490 (857)
T PLN03077        415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSV  490 (857)
T ss_pred             HHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHh
Confidence            99999999999999999999999999999999988864    4677788888888888888888888877753200    


Q ss_pred             ------------------HHHHHHhHhcCC------------------------------CCChHHHHHHHHHHHhcCCH
Q 044256          229 ------------------KKIFNEMKLCNV------------------------------VPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       229 ------------------~~~~~~~~~~~~------------------------------~~~~~~~~~ll~~~~~~~~~  260 (363)
                                        .+++..+.+.|+                              .||..+|+++|.+|++.|+.
T Consensus       491 t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~  570 (857)
T PLN03077        491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKG  570 (857)
T ss_pred             HHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCH
Confidence                              222222222222                              67888999999999999999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh-hCCCCccHHHHHHHHHHHHccCChhHHHHHHHH
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS-CKNLVADVVAYNILIHALGKEGQIKKENYLLLS  339 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  339 (363)
                      ++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|. ..|+.|+..+|+.++.+|++.|++++|.+++++
T Consensus       571 ~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~  650 (857)
T PLN03077        571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK  650 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999 689999999999999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhhcC
Q 044256          340 MEENGCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       340 m~~~g~~p~~~~~~~ll~~~~~~~  363 (363)
                      |.   +.||..+|.+|+.+|..+|
T Consensus       651 m~---~~pd~~~~~aLl~ac~~~~  671 (857)
T PLN03077        651 MP---ITPDPAVWGALLNACRIHR  671 (857)
T ss_pred             CC---CCCCHHHHHHHHHHHHHcC
Confidence            84   7999999999999997654

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

Probab=99.95  E-value=2.9e-24  Score=202.77  Aligned_cols=345  Identities=11%  Similarity=0.023  Sum_probs=248.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|.+.|+.+.+.  .|.+..++..+...+.+.|++++|..+++++...+ +.+...+..++..+...|++++|..+
T Consensus       513 g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  589 (899)
T TIGR02917       513 GNPDDAIQRFEKVLTI--DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAI  589 (899)
T ss_pred             CCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHH
Confidence            6778888888888775  45577778888888888888888888888877654 34555667777777888888888888


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~  154 (363)
                      ++.+....       +.+..+|..+..++.+.|++++|...|+++.+.......       .+...|++++|...++++.
T Consensus       590 ~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  662 (899)
T TIGR02917       590 LNEAADAA-------PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRAL  662 (899)
T ss_pred             HHHHHHcC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88777643       556677777778888888888888888777765332111       4556777777777777776


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH------
Q 044256          155 QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF------  228 (363)
Q Consensus       155 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------  228 (363)
                      +.. +.+..++..+...+...|++++|..+++.+.+.+ +++...+..+...+...|++++|...++.+.....      
T Consensus       663 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  740 (899)
T TIGR02917       663 ELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAI  740 (899)
T ss_pred             hcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHH
Confidence            653 3345666667777777777777777777766653 33555666666666677777777777766654321      


Q ss_pred             ---------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC
Q 044256          229 ---------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG  293 (363)
Q Consensus       229 ---------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  293 (363)
                                     ...+..+... .+.+...+..+...|...|++++|...|+++.+.. +.++.++..+...+...|
T Consensus       741 ~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  818 (899)
T TIGR02917       741 KLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELK  818 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence                           1222222222 23456777888888888899999999999888775 677888888888888888


Q ss_pred             ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhcC
Q 044256          294 IFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       294 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  363 (363)
                      + .+|...++++.... +-++..+..+...+...|++++|.++++++++.+. .+..++..+..++.+.|
T Consensus       819 ~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g  885 (899)
T TIGR02917       819 D-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATG  885 (899)
T ss_pred             c-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcC
Confidence            8 77888888887763 44667777888889999999999999999998653 37888888888887665

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.95  E-value=3.3e-25  Score=188.84  Aligned_cols=300  Identities=12%  Similarity=0.022  Sum_probs=210.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cccHHHHHHHHHhcCChhHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN---VTTCDTLITGLRRTGNMNLT   78 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~~~~~~a   78 (363)
                      |++++|...|..+.+.  .|.+..++..+...+...|++++|..+++.+...+..++   ..++..+...+.+.|++++|
T Consensus        49 ~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         49 EQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             CChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            5566666666666654  444555666666666666666666666666655321111   12345556666666666666


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      ..+|+++.+..       +++..+++.++..+.+.|++++|.+.++.+.+.+..+..                       
T Consensus       127 ~~~~~~~l~~~-------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----------------------  176 (389)
T PRK11788        127 EELFLQLVDEG-------DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLR-----------------------  176 (389)
T ss_pred             HHHHHHHHcCC-------cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcch-----------------------
Confidence            66666665532       344555666666666666666666666666543211100                       


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      ......+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|...++++...+.          
T Consensus       177 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p----------  245 (389)
T PRK11788        177 VEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDP----------  245 (389)
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCh----------
Confidence            0012245667788889999999999999998763 33456778888999999999999999888875431          


Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHH
Q 044256          239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYN  318 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  318 (363)
                        .....+++.++.+|...|++++|.+.++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+...++
T Consensus       246 --~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~  319 (389)
T PRK11788        246 --EYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFH  319 (389)
T ss_pred             --hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHH
Confidence              112456788899999999999999999999876  456666788999999999999999999998876  58888999


Q ss_pred             HHHHHHHc---cCChhHHHHHHHHHHHcCCCCCHH
Q 044256          319 ILIHALGK---EGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       319 ~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      .++..+..   .|+.+++..++++|.+.++.|+..
T Consensus       320 ~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        320 RLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            88887664   568999999999999987777654

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

Probab=99.95  E-value=2.2e-23  Score=196.90  Aligned_cols=330  Identities=13%  Similarity=0.015  Sum_probs=247.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|.+.|+.+.+.  .|.+...+..+...+...|++++|.+.|+++...+ +.+..++..+...+.+.|+.++|..
T Consensus       478 ~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  554 (899)
T TIGR02917       478 KGDLAKAREAFEKALSI--EPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVA  554 (899)
T ss_pred             CCCHHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            47899999999999886  66678889999999999999999999999998875 4567788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELM  153 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~  153 (363)
                      .++++....       +.+...+..++..+.+.|++++|..+++++.+.......       .+...|++++|...++.+
T Consensus       555 ~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  627 (899)
T TIGR02917       555 WLEKAAELN-------PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKL  627 (899)
T ss_pred             HHHHHHHhC-------ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999998865       567788889999999999999999999999876543322       667889999999999999


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHH
Q 044256          154 MQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFN  233 (363)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  233 (363)
                      .+.. +.+...+..+...+.+.|++++|..+++.+.+.. +.+..++..+...+...|++++|..+++.+....      
T Consensus       628 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------  699 (899)
T TIGR02917       628 LALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH------  699 (899)
T ss_pred             HHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC------
Confidence            8764 4466788899999999999999999999998763 4467889999999999999999999999987654      


Q ss_pred             HhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc
Q 044256          234 EMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD  313 (363)
Q Consensus       234 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  313 (363)
                             +.+...+..+...+...|++++|.+.|+.+....  |+..++..++.++.+.|++++|.+.++.+.+.. +.+
T Consensus       700 -------~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~  769 (899)
T TIGR02917       700 -------PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PND  769 (899)
T ss_pred             -------cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence                   2344445555555555666666666666555442  223444555555555555555555555555442 334


Q ss_pred             HHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          314 VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       314 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      ...+..+...|...|++++|..+|+++.+.. +++...+..+...+
T Consensus       770 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~  814 (899)
T TIGR02917       770 AVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLY  814 (899)
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            5555555555555555555555555555532 23344444444433

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=9.3e-22  Score=175.74  Aligned_cols=316  Identities=13%  Similarity=0.050  Sum_probs=264.0

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      +|++++|..+++..+..  .|.++..+..++.+....|++++|+..|+++.+.. +.+...+..+...+...|++++|..
T Consensus        55 ~g~~~~A~~l~~~~l~~--~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~  131 (656)
T PRK15174         55 KDETDVGLTLLSDRVLT--AKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVAD  131 (656)
T ss_pred             cCCcchhHHHhHHHHHh--CCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHH
Confidence            48899999999999987  66678888888888999999999999999999874 4456678888899999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~  154 (363)
                      .++++.+..       +.+...+..+..++...|++++|...++.+....+.+..      .+...|++++|...++.+.
T Consensus       132 ~l~~Al~l~-------P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l  204 (656)
T PRK15174        132 LAEQAWLAF-------SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATCLSFLNKSRLPEDHDLARALL  204 (656)
T ss_pred             HHHHHHHhC-------CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999854       556788899999999999999999999988776544433      4567899999999999988


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH----HHHHHHHHHHhhHHH
Q 044256          155 QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE----AMNVSREMILNGFKK  230 (363)
Q Consensus       155 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~  230 (363)
                      +....++...+..+...+...|++++|+..++...+.. +.+...+..+...+...|++++    |...++++....   
T Consensus       205 ~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~---  280 (656)
T PRK15174        205 PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN---  280 (656)
T ss_pred             hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC---
Confidence            77544444555666788899999999999999998874 3467778888999999999986    787777776654   


Q ss_pred             HHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 044256          231 IFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  310 (363)
                                +.+...+..+...+...|++++|...++++.... +.+...+..+..++.+.|++++|...++.+...+ 
T Consensus       281 ----------P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~-  348 (656)
T PRK15174        281 ----------SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK-  348 (656)
T ss_pred             ----------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence                      2356688889999999999999999999999875 5667788889999999999999999999998763 


Q ss_pred             CccH-HHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          311 VADV-VAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       311 ~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                       |+. ..+..+..++...|++++|...|++..+.
T Consensus       349 -P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        349 -GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             -ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence             443 34444567889999999999999999875

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=2.1e-21  Score=165.54  Aligned_cols=280  Identities=16%  Similarity=0.141  Sum_probs=227.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC---chhhHHH
Q 044256           29 SLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP---NVFCYGS  105 (363)
Q Consensus        29 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~~~~~~  105 (363)
                      .....+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+....      ..+   ...++..
T Consensus        40 ~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~------~~~~~~~~~~~~~  112 (389)
T PRK11788         40 FKGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRP------DLTREQRLLALQE  112 (389)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCC------CCCHHHHHHHHHH
Confidence            33445678899999999999999874 3455678889999999999999999999988743      111   2356788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALF  185 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  185 (363)
                      +...|.+.|+++.|..+|+++.+..                            +++..++..++..+.+.|++++|.+.+
T Consensus       113 La~~~~~~g~~~~A~~~~~~~l~~~----------------------------~~~~~~~~~la~~~~~~g~~~~A~~~~  164 (389)
T PRK11788        113 LGQDYLKAGLLDRAEELFLQLVDEG----------------------------DFAEGALQQLLEIYQQEKDWQKAIDVA  164 (389)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHcCC----------------------------cchHHHHHHHHHHHHHhchHHHHHHHH
Confidence            8999999999999999999987531                            345678899999999999999999999


Q ss_pred             HHHHHcCCCCc----HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHH
Q 044256          186 DSMARKGFMPD----VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVL  261 (363)
Q Consensus       186 ~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  261 (363)
                      +.+.+.+..+.    ...+..+...+.+.|++++|...++++.+..             +.+...+..+...+.+.|+++
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------------p~~~~~~~~la~~~~~~g~~~  231 (389)
T PRK11788        165 ERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-------------PQCVRASILLGDLALAQGDYA  231 (389)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-------------cCCHHHHHHHHHHHHHCCCHH
Confidence            99988753332    1245567777889999999999988877643             234557778889999999999


Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      +|.++++++...+......++..++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|..+++++.
T Consensus       232 ~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l  309 (389)
T PRK11788        232 AAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQL  309 (389)
T ss_pred             HHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            99999999987642333567889999999999999999999999886  4666777889999999999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHh
Q 044256          342 ENGCALDVDTFNTLMISFL  360 (363)
Q Consensus       342 ~~g~~p~~~~~~~ll~~~~  360 (363)
                      +.  .|+..++..++..+.
T Consensus       310 ~~--~P~~~~~~~l~~~~~  326 (389)
T PRK11788        310 RR--HPSLRGFHRLLDYHL  326 (389)
T ss_pred             Hh--CcCHHHHHHHHHHhh
Confidence            84  799999998887665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=8.6e-19  Score=156.88  Aligned_cols=281  Identities=11%  Similarity=0.026  Sum_probs=230.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|...|+.+.+.  .|.++..+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|..
T Consensus        89 ~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~  165 (656)
T PRK15174         89 SSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAIS  165 (656)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHH
Confidence            48999999999999997  88789999999999999999999999999999863 3456678889999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLEL  152 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~  152 (363)
                      .++.+....       +.+...+..+ ..+.+.|++++|...++.+.+....+..        .+...|++++|...++.
T Consensus       166 ~~~~~~~~~-------P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~  237 (656)
T PRK15174        166 LARTQAQEV-------PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGES  237 (656)
T ss_pred             HHHHHHHhC-------CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999887753       3334444443 3478899999999999998876432221        56678999999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHH----HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH
Q 044256          153 MMQRGLNPVIFTYTPLLNGYCLVGKVNV----AIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (363)
                      +.... +.+...+..+...+...|++++    |...|+...+.. +.+...+..+...+...|++++|...+++..... 
T Consensus       238 al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-  314 (656)
T PRK15174        238 ALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-  314 (656)
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            99875 4457788889999999999986    899999988763 3366788899999999999999999988887654 


Q ss_pred             HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          229 KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                                  +.+...+..+..++...|++++|...++.+...+ +.+...+..+..++...|+.++|...|++..+.
T Consensus       315 ------------P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~-P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        315 ------------PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK-GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             ------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                        2345567778899999999999999999998764 333344555677889999999999999998876

>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=99.89  E-value=3.4e-18  Score=153.42  Aligned_cols=287  Identities=14%  Similarity=0.019  Sum_probs=180.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+++.  .| ++..|..+..+|.+.|++++|++.+++.++.. +.+...|..+..++...|++++|+.
T Consensus       140 ~~~~~~Ai~~y~~al~~--~p-~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~  215 (615)
T TIGR00990       140 NKDFNKAIKLYSKAIEC--KP-DPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALL  215 (615)
T ss_pred             cCCHHHHHHHHHHHHhc--CC-chHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            37899999999999986  78 78899999999999999999999999999874 3356688889999999999999987


Q ss_pred             HHHHHHhccCCCC-----------------------CccCCchhhHHHH------------------------------H
Q 044256           81 LHQEMVNGMGDFG-----------------------GIYKPNVFCYGSL------------------------------I  107 (363)
Q Consensus        81 ~~~~~~~~~~~~~-----------------------~~~~~~~~~~~~l------------------------------l  107 (363)
                      .|..........+                       ...+++...+..+                              +
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (615)
T TIGR00990       216 DLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQL  295 (615)
T ss_pred             HHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchH
Confidence            6654432110000                       0000110011100                              0


Q ss_pred             HHH------HhcCCHHHHHHHHHHHHHcC-CCcch---------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 044256          108 DGL------CKDRLVDQTKDLFMEMKDKG-INANT---------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNG  171 (363)
Q Consensus       108 ~~~------~~~~~~~~a~~~~~~~~~~~-~~~~~---------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  171 (363)
                      ...      ...+++++|.+.|++..+.+ ..|..         .+...|++++|...+++.++.. +.+...|..+...
T Consensus       296 ~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~  374 (615)
T TIGR00990       296 QLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASM  374 (615)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            000      11246777777777777654 22322         4456777888888887777653 2234566677777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHH
Q 044256          172 YCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFI  251 (363)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  251 (363)
                      +...|++++|+..|+...+.. +.+...|..+...+...|++++|...|++.+...             +.+...+..+.
T Consensus       375 ~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-------------P~~~~~~~~la  440 (615)
T TIGR00990       375 NLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-------------PDFIFSHIQLG  440 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------------ccCHHHHHHHH
Confidence            777778888888777776653 2345667777777777788888877777766543             12233344444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      .++.+.|++++|+..|++..+.. +.++..++.+...+...|++++|.+.|++...
T Consensus       441 ~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       441 VTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            55555555555555555554432 33444555555555555555555555555444

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.89  E-value=2.3e-18  Score=164.24  Aligned_cols=326  Identities=12%  Similarity=0.045  Sum_probs=243.3

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc---cHH------------HH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT---TCD------------TL   65 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~------------~l   65 (363)
                      .|++++|+..|+.+++.  .|.++.++..+..++.+.|++++|+..|++..+..  |+..   .|.            ..
T Consensus       282 ~g~~~~A~~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~--p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        282 SGQGGKAIPELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALD--PHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCccchhHHHHHHHhhhHHHHHHH
Confidence            37899999999999986  77789999999999999999999999999998763  3321   121            22


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------h--
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------L--  136 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~--  136 (363)
                      ...+.+.|++++|...|+++.+..       +.+...+..+..++...|++++|++.|++..+.......       .  
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~-------P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~  430 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVD-------NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR  430 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            446678999999999999999864       456778888999999999999999999999876433221       1  


Q ss_pred             ----------------------------------------hhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 044256          137 ----------------------------------------LCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVG  176 (363)
Q Consensus       137 ----------------------------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (363)
                                                              +...|++++|...+++.++.. +-+...+..+...|.+.|
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence                                                    123577777777777777654 234556667777788888


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH----------------------------
Q 044256          177 KVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF----------------------------  228 (363)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------------------  228 (363)
                      ++++|+..++++.+.. +.+...+..+...+...++.++|+..++.+.....                            
T Consensus       510 ~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            8888888888776642 22333444444445567777777776665421100                            


Q ss_pred             -HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          229 -KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       229 -~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                       ......+.  ..+.+...+..+...+.+.|++++|+..|+++.+.. |.+...+..++..+...|++++|.+.++.+..
T Consensus       589 ~~eA~~~l~--~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        589 EAEAEALLR--QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHHHHHHH--hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence             00000111  123455667778888999999999999999999875 66788999999999999999999999998876


Q ss_pred             CCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          308 KNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       308 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .. +.+...+..+..++...|++++|.+++++++..
T Consensus       666 ~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        666 TA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             cC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            53 345667777888899999999999999999875

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

Probab=99.88  E-value=4.2e-19  Score=147.19  Aligned_cols=318  Identities=15%  Similarity=0.124  Sum_probs=239.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--------------------
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT--------------------   60 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--------------------   60 (363)
                      .|++++|+.+++.+.+.  .|.....|..+..++...|+.+.|.+.|.+.++.  .|+..                    
T Consensus       129 rg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             hchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhH
Confidence            47889999999999986  7878899999999999999999999998888765  34322                    


Q ss_pred             ---------------cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc-hhhHHHHHHHHHhcCCHHHHHHHHH
Q 044256           61 ---------------TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN-VFCYGSLIDGLCKDRLVDQTKDLFM  124 (363)
Q Consensus        61 ---------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~  124 (363)
                                     .|+.|...+-..|+...|++.|++...        +.|+ ...|-.|...|...+.+++|...|.
T Consensus       205 ~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--------ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~  276 (966)
T KOG4626|consen  205 ACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--------LDPNFLDAYINLGNVYKEARIFDRAVSCYL  276 (966)
T ss_pred             HHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--------CCCcchHHHhhHHHHHHHHhcchHHHHHHH
Confidence                           223333333344555555555555555        3333 4456666666666667777776666


Q ss_pred             HHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 044256          125 EMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV  197 (363)
Q Consensus       125 ~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  197 (363)
                      +.....+....       +|...|..+.|...+++.++.. +--...|+.|..++...|++.+|.+.|....... +...
T Consensus       277 rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~ha  354 (966)
T KOG4626|consen  277 RALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHA  354 (966)
T ss_pred             HHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccH
Confidence            66543221111       5677888888888888888763 2236788888888888888888888888877762 2245


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc
Q 044256          198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE-TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      .+.+.|...|...|.+++|..+|.....-.              |. ...++.|...|-.+|++++|+..|++.+... |
T Consensus       355 dam~NLgni~~E~~~~e~A~~ly~~al~v~--------------p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~-P  419 (966)
T KOG4626|consen  355 DAMNNLGNIYREQGKIEEATRLYLKALEVF--------------PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIK-P  419 (966)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHhhC--------------hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC-c
Confidence            567778888888888888888887766532              44 4578889999999999999999999998764 4


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      .-...|+.+...|-..|+.+.|.+.+.+.+..+ +--...++.|...|-..|+..+|+.-|++.++  ++||..
T Consensus       420 ~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n-Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfp  490 (966)
T KOG4626|consen  420 TFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN-PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFP  490 (966)
T ss_pred             hHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC-cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCc
Confidence            446789999999999999999999999998864 33467889999999999999999999999998  677754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=2.5e-18  Score=163.99  Aligned_cols=317  Identities=12%  Similarity=0.021  Sum_probs=233.0

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHH-------------
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLIT-------------   67 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~-------------   67 (363)
                      .|++++|+..|+++.+.  .|.+...+..+..++...|++++|++.|++..+.. +.+...+..+..             
T Consensus       364 ~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        364 ANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHH
Confidence            37889999999999987  67678889999999999999999999999998763 222333333332             


Q ss_pred             -----------------------------HHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHH
Q 044256           68 -----------------------------GLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQ  118 (363)
Q Consensus        68 -----------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  118 (363)
                                                   .+...|++++|++.|++..+..       +.+...+..+...|.+.|++++
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-------P~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-------PGSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHcCCHHH
Confidence                                         3345677777777777777743       3456666777777888888888


Q ss_pred             HHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchh---------hHHHHHHHHHhcCCHHHHH
Q 044256          119 TKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIF---------TYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       119 a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~~~~~~a~  182 (363)
                      |...++++.+..+....       .+...++.++|...++.+......++..         .+..+...+...|+.++|+
T Consensus       514 A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        514 ADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            88888877764332211       3345677777777777654332222211         1223456677788888888


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      .+++.     .+++...+..+...+.+.|++++|+..+++++...             +.+...+..++..+...|++++
T Consensus       594 ~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-------------P~~~~a~~~la~~~~~~g~~~e  655 (1157)
T PRK11447        594 ALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-------------PGNADARLGLIEVDIAQGDLAA  655 (1157)
T ss_pred             HHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHCCCHHH
Confidence            88762     24466677788888999999999999998887654             3457788899999999999999


Q ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC--Cc---cHHHHHHHHHHHHccCChhHHHHHH
Q 044256          263 VMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL--VA---DVVAYNILIHALGKEGQIKKENYLL  337 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~---~~~~~~~li~~~~~~g~~~~a~~~~  337 (363)
                      |++.++.+.... +.+..++..+..++...|++++|.++++.+.....  +|   +...+..+...+...|++++|+..|
T Consensus       656 A~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y  734 (1157)
T PRK11447        656 ARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETY  734 (1157)
T ss_pred             HHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999887654 45566777888899999999999999999987532  22   2345666778889999999999999


Q ss_pred             HHHHHc-CCC
Q 044256          338 LSMEEN-GCA  346 (363)
Q Consensus       338 ~~m~~~-g~~  346 (363)
                      ++.... |+.
T Consensus       735 ~~Al~~~~~~  744 (1157)
T PRK11447        735 KDAMVASGIT  744 (1157)
T ss_pred             HHHHhhcCCC
Confidence            998742 443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=1.3e-17  Score=152.52  Aligned_cols=340  Identities=10%  Similarity=-0.015  Sum_probs=240.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..+|+.+++.  .|.++..+..+...+...|++++|+..+++..+.. +.+.. +..+..++...|+.++|+.
T Consensus        62 ~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~  137 (765)
T PRK10049         62 LKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELR  137 (765)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHH
Confidence            37889999999999886  77678888999999999999999999999998873 34455 8888889999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHH------------------------------------
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFM------------------------------------  124 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~------------------------------------  124 (363)
                      .++++.+..       +.+...+..+..++...+..+.|+..++                                    
T Consensus       138 ~l~~al~~~-------P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~  210 (765)
T PRK10049        138 AMTQALPRA-------PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYA  210 (765)
T ss_pred             HHHHHHHhC-------CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHH
Confidence            999999864       4455666666666666666665554444                                    


Q ss_pred             ----------HHHHc-CCCcch-------------hhhccCChHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHhcCCHH
Q 044256          125 ----------EMKDK-GINANT-------------LLCKKTKLVEANRLLELMMQRGLN-PVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       125 ----------~~~~~-~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~  179 (363)
                                .+.+. ...|+.             .+...+++++|...|+.+.+.+.+ |+. ....+...|...|+++
T Consensus       211 ~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e  289 (765)
T PRK10049        211 IADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPE  289 (765)
T ss_pred             HHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcH
Confidence                      33322 111111             134567777788888777766421 221 1222456777778888


Q ss_pred             HHHHHHHHHHHcCCCC---cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC---hHHHHHHHHH
Q 044256          180 VAIALFDSMARKGFMP---DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE---TFTCNIFIDG  253 (363)
Q Consensus       180 ~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~ll~~  253 (363)
                      +|+.+|+.+.+.....   .......+..++...|++++|..+++.+....+.... ......-.|+   ...+..+...
T Consensus       290 ~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~-~~~~~~~~p~~~~~~a~~~~a~~  368 (765)
T PRK10049        290 KAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLR-LYGSPTSIPNDDWLQGQSLLSQV  368 (765)
T ss_pred             HHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEe-ecCCCCCCCCchHHHHHHHHHHH
Confidence            8888887776542111   1234455556677778888887777766543210000 0000001223   2245567778


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH
Q 044256          254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE  333 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  333 (363)
                      +...|+.++|++.++++.... |.+...+..+...+...|++++|++.++++.... +.+...+......+.+.|++++|
T Consensus       369 l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A  446 (765)
T PRK10049        369 AKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQM  446 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHH
Confidence            889999999999999998775 7778899999999999999999999999999874 44577788888899999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          334 NYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       334 ~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      ..+++++++  ..|+......+=+
T Consensus       447 ~~~~~~ll~--~~Pd~~~~~~~~~  468 (765)
T PRK10049        447 DVLTDDVVA--REPQDPGVQRLAR  468 (765)
T ss_pred             HHHHHHHHH--hCCCCHHHHHHHH
Confidence            999999998  4666655544433

>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=99.86  E-value=2.1e-17  Score=148.31  Aligned_cols=294  Identities=10%  Similarity=-0.077  Sum_probs=240.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ..+......+.+.|++++|+..|++.+..  .|+...|..+..+|.+.|++++|+..++..++..       +.+...|.
T Consensus       128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-------p~~~~a~~  198 (615)
T TIGR00990       128 AKLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-------PDYSKALN  198 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-------CCCHHHHH
Confidence            34667788899999999999999999875  6788889999999999999999999999999854       45677899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC----------------------------Ccch---------------------
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGI----------------------------NANT---------------------  135 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~----------------------------~~~~---------------------  135 (363)
                      .+..++...|++++|+..|......+.                            .|..                     
T Consensus       199 ~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  278 (615)
T TIGR00990       199 RRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPA  278 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchh
Confidence            999999999999999876544321110                            0000                     


Q ss_pred             --------------hh----------hccCChHHHHHHHHHHHHcC-CCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          136 --------------LL----------CKKTKLVEANRLLELMMQRG-LNP-VIFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       136 --------------~~----------~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                                    .+          ...+.+++|...|+.....+ ..| ....+..+...+...|++++|+..++...
T Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       279 GLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                          00          11257888999999988764 223 45678888888899999999999999988


Q ss_pred             HcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          190 RKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPT  269 (363)
Q Consensus       190 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  269 (363)
                      +.. +.....|..+...+...|++++|...+++++...             +.+...|..+...+...|++++|...|++
T Consensus       359 ~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~k  424 (615)
T TIGR00990       359 ELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-------------SEDPDIYYHRAQLHFIKGEFAQAGKDYQK  424 (615)
T ss_pred             HcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            763 2235678888888999999999999988876653             34567888899999999999999999999


Q ss_pred             HHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          270 LEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       270 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+.. +.+...+..+..++.+.|++++|...|++..... +.+...|+.+..++...|++++|...|++.++.
T Consensus       425 al~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       425 SIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            99875 6677888899999999999999999999998763 556888999999999999999999999999874

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=8.7e-17  Score=147.04  Aligned_cols=326  Identities=10%  Similarity=-0.001  Sum_probs=241.2

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|+.++|+++|......  .|.+...+..+...+.+.|++++|..+|++.++.. +.+...+..+..++...|++++|+.
T Consensus        28 ~g~~~~A~~~~~~~~~~--~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~  104 (765)
T PRK10049         28 AGQDAEVITVYNRYRVH--MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALV  104 (765)
T ss_pred             cCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47899999999999874  55477789999999999999999999999988763 3456677788889999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChH---------
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLV---------  144 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~---------  144 (363)
                      .++++.+..       +.+.. +..+..++...|+.++|+..++++.+..+....       .+...+..+         
T Consensus       105 ~l~~~l~~~-------P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049        105 KAKQLVSGA-------PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHhC-------CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            999999864       55666 888999999999999999999999987554333       222233333         


Q ss_pred             -------------------------------------HHHHHHHHHHHc-CCCCchh-hHH----HHHHHHHhcCCHHHH
Q 044256          145 -------------------------------------EANRLLELMMQR-GLNPVIF-TYT----PLLNGYCLVGKVNVA  181 (363)
Q Consensus       145 -------------------------------------~a~~~~~~~~~~-~~~~~~~-~~~----~li~~~~~~~~~~~a  181 (363)
                                                           +|+..++.+.+. ...|+.. .+.    ..+..+...|++++|
T Consensus       177 ~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA  256 (765)
T PRK10049        177 NLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDV  256 (765)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHH
Confidence                                                 344444455432 1122211 111    113345677999999


Q ss_pred             HHHHHHHHHcCCC-CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          182 IALFDSMARKGFM-PDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       182 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      +..|+.+.+.+.+ |+. ....+..+|...|++++|...++++.....         ............+..++...|++
T Consensus       257 ~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p---------~~~~~~~~~~~~L~~a~~~~g~~  326 (765)
T PRK10049        257 ISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPE---------TIADLSDEELADLFYSLLESENY  326 (765)
T ss_pred             HHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCC---------CCCCCChHHHHHHHHHHHhcccH
Confidence            9999999887532 322 222256688899999999988887654320         00001123456667778899999


Q ss_pred             HHHHHHHHHHHhccC-----------cch---HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc
Q 044256          261 LEVMELFPTLEISNC-----------ELF---VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK  326 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~-----------~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  326 (363)
                      ++|.++++.+....-           .|+   ...+..+...+...|++++|+++++++.... +.+...+..+...+..
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~  405 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQA  405 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            999999999886530           122   2355677788899999999999999998774 6678899999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHH
Q 044256          327 EGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       327 ~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      .|++++|++.+++.++  +.|+..
T Consensus       406 ~g~~~~A~~~l~~al~--l~Pd~~  427 (765)
T PRK10049        406 RGWPRAAENELKKAEV--LEPRNI  427 (765)
T ss_pred             cCCHHHHHHHHHHHHh--hCCCCh
Confidence            9999999999999998  457753

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

Probab=99.83  E-value=1.7e-17  Score=137.80  Aligned_cols=295  Identities=15%  Similarity=0.135  Sum_probs=178.9

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.-.++|..+.+.+...|++++|+..|+.+++.. +.....|..+..++...|+.+.|.+.|.+.++.        .|+
T Consensus       112 ~~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--------nP~  182 (966)
T KOG4626|consen  112 NPQGAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--------NPD  182 (966)
T ss_pred             cchHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--------Ccc
Confidence            44467889999999999999999999999999874 335778999999999999999999999988874        454


Q ss_pred             hhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 044256          100 VFCYG-SLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNG  171 (363)
Q Consensus       100 ~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  171 (363)
                      ..... .+....-..|++++|...|.+.++.......       ++...|+...|.+.|++..+.+ +.-...|-.|...
T Consensus       183 l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV  261 (966)
T KOG4626|consen  183 LYCARSDLGNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNV  261 (966)
T ss_pred             hhhhhcchhHHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHH
Confidence            33332 2333344456666666666666554322111       4445566666666666555543 1113344444444


Q ss_pred             HHh----------------------------------cCCHHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHH
Q 044256          172 YCL----------------------------------VGKVNVAIALFDSMARKGFMPD-VFSYSVLINGYCKNFNVEEA  216 (363)
Q Consensus       172 ~~~----------------------------------~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  216 (363)
                      |..                                  .|..|.|+..|++..+.  .|+ ...|+.|..++...|++.+|
T Consensus       262 ~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea  339 (966)
T KOG4626|consen  262 YKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEA  339 (966)
T ss_pred             HHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHH
Confidence            444                                  45555555555554443  222 34555555555556666666


Q ss_pred             HHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChH
Q 044256          217 MNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE  296 (363)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  296 (363)
                      .+.+.+.+...             +......+.|..++...|.+++|..+|....+.. +--....+.|...|-++|+++
T Consensus       340 ~~cYnkaL~l~-------------p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~  405 (966)
T KOG4626|consen  340 VDCYNKALRLC-------------PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLD  405 (966)
T ss_pred             HHHHHHHHHhC-------------CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHH
Confidence            55555554432             1223455556666666666666666666655442 223445566666666666666


Q ss_pred             HHHHHHHHhhhCCCCcc-HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          297 IASELFNKLSCKNLVAD-VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       297 ~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +|...+++..+.  .|+ ...|+.+...|-..|+.+.|.+.+.+.+.
T Consensus       406 ~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  406 DAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             HHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh
Confidence            666666666554  233 45566666666666666666666666665

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=2.9e-16  Score=141.51  Aligned_cols=337  Identities=12%  Similarity=0.020  Sum_probs=220.1

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|+++|+.+.+.  .|.++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.
T Consensus       116 gdyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        116 KRWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             CCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHH
Confidence            5667777777777765  6656666666666677777777777777776655  44444443333333334455457777


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHH------------------------------------
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFME------------------------------------  125 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~------------------------------------  125 (363)
                      ++++.+..       +.+...+..++.+..+.|-...|.++..+                                    
T Consensus       192 ~ekll~~~-------P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        192 SSEAVRLA-------PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHhC-------CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            77777653       33455555555555555444444433332                                    


Q ss_pred             ------------HHHc-CCCcch-------------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          126 ------------MKDK-GINANT-------------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       126 ------------~~~~-~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                                  +... +..|..             ++...+++.++.+.++.+...+.+....+-..+.++|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence                        1110 000110             45566777777777777777765544556677778888888888


Q ss_pred             HHHHHHHHHHHcC-----CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc--CCCCCh-HHHHHHH
Q 044256          180 VAIALFDSMARKG-----FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC--NVVPET-FTCNIFI  251 (363)
Q Consensus       180 ~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~ll  251 (363)
                      +|+.+|+.+....     .+++......|.-+|...+++++|..+++++....+. ........  ...||- ..+..++
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~-~~~~~~~~~~~pn~d~~~~~~l~a  423 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPY-QVGVYGLPGKEPNDDWIEGQTLLV  423 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc-EEeccCCCCCCCCccHHHHHHHHH
Confidence            8888888776542     1223333566777788888888888777776553210 00000001  112222 2344567


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChh
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIK  331 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  331 (363)
                      ..+...|+..+|++.++++.... |-|......+...+...|.+.+|.+.++...... +-+..+......++...|+++
T Consensus       424 ~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~  501 (822)
T PRK14574        424 QSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWH  501 (822)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHH
Confidence            77889999999999999998776 8899999999999999999999999998877763 556778888888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHH
Q 044256          332 KENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       332 ~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      +|..+.+.+.+  ..|+......
T Consensus       502 ~A~~~~~~l~~--~~Pe~~~~~~  522 (822)
T PRK14574        502 QMELLTDDVIS--RSPEDIPSQE  522 (822)
T ss_pred             HHHHHHHHHHh--hCCCchhHHH
Confidence            99999999987  3555544433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.78  E-value=3.6e-15  Score=126.24  Aligned_cols=289  Identities=9%  Similarity=-0.022  Sum_probs=196.1

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHH--HHHHHHHhcCChhHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVT-FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCD--TLITGLRRTGNMNLT   78 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~l~~~~~~~~~~~~a   78 (363)
                      ||++.|.+.+....+.  .+ ++.. |.....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|
T Consensus        98 Gd~~~A~k~l~~~~~~--~~-~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         98 GDYQQVEKLMTRNADH--AE-QPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCHHHHHHHHHHHHhc--cc-chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            6677777666665543  11 2222 322234446677777777777777654  44443222  224566667777777


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      ...++.+.+..       +.+......+...|.+.|++++|.+++..+.+....+..         +..    ..     
T Consensus       173 l~~l~~~~~~~-------P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~---------~~~----~l-----  227 (398)
T PRK10747        173 RHGVDKLLEVA-------PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE---------HRA----ML-----  227 (398)
T ss_pred             HHHHHHHHhcC-------CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH---------HHH----HH-----
Confidence            77777776653       445666666777777777777777777777665332110         000    00     


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                        ...+|..++.......+.+...++++.+.+. .+.++.....+...+...|+.++|..++++..+.            
T Consensus       228 --~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~------------  292 (398)
T PRK10747        228 --EQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR------------  292 (398)
T ss_pred             --HHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc------------
Confidence              0013334444444455667777777776543 3457778888999999999999999888776653            


Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHH
Q 044256          239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYN  318 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  318 (363)
                        .|+....  ++.+....++++++.+..+...+.. |-|+..+..+...|.+.+++++|.+.|+...+.  .|+...+.
T Consensus       293 --~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~  365 (398)
T PRK10747        293 --QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYA  365 (398)
T ss_pred             --CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHH
Confidence              2555322  3444456699999999999988775 777888999999999999999999999999986  68999999


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHH
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+..++.+.|+.++|.+++++-..
T Consensus       366 ~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        366 WLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999999999999999998765

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

Probab=99.78  E-value=3.1e-18  Score=138.64  Aligned_cols=261  Identities=16%  Similarity=0.090  Sum_probs=113.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHH
Q 044256           29 SLIKGFCMEGNIRDASQLVKKMATFG-CRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLI  107 (363)
Q Consensus        29 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  107 (363)
                      .+...+.+.|++++|++++++..... .+.|...|..+...+...++++.|...++++...+       +-+...+..++
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-------~~~~~~~~~l~   85 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-------KANPQDYERLI   85 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-------ccccccccccc
Confidence            56778888999999999996654443 13344555666667778889999999999998865       33566677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          108 DGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDS  187 (363)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  187 (363)
                      .. ...+++++|.+++++..+.                             .++...+..++..+.+.++++.+..+++.
T Consensus        86 ~l-~~~~~~~~A~~~~~~~~~~-----------------------------~~~~~~l~~~l~~~~~~~~~~~~~~~l~~  135 (280)
T PF13429_consen   86 QL-LQDGDPEEALKLAEKAYER-----------------------------DGDPRYLLSALQLYYRLGDYDEAEELLEK  135 (280)
T ss_dssp             --------------------------------------------------------------H-HHHTT-HHHHHHHHHH
T ss_pred             cc-ccccccccccccccccccc-----------------------------ccccchhhHHHHHHHHHhHHHHHHHHHHH
Confidence            77 6888888888887765543                             23455677788889999999999999998


Q ss_pred             HHHcC-CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHH
Q 044256          188 MARKG-FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVME  265 (363)
Q Consensus       188 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~  265 (363)
                      +.... .+++...|..+...+.+.|+.++|...+++.++..              | +......++..+...|+.+++.+
T Consensus       136 ~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--------------P~~~~~~~~l~~~li~~~~~~~~~~  201 (280)
T PF13429_consen  136 LEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD--------------PDDPDARNALAWLLIDMGDYDEARE  201 (280)
T ss_dssp             HHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---------------TT-HHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------------CCCHHHHHHHHHHHHHCCChHHHHH
Confidence            77542 34577788888899999999999999999988875              5 46778888999999999999999


Q ss_pred             HHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          266 LFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +++...+.. +.|+..+..+..+|...|+.++|...|++..... +.|+.....+..++...|+.++|.++.++...
T Consensus       202 ~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  202 ALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             HHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            998887765 6677788999999999999999999999998864 55888888999999999999999999887654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.78  E-value=1.4e-14  Score=133.41  Aligned_cols=320  Identities=12%  Similarity=0.010  Sum_probs=242.0

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-C-CCCCcccHHHHHHHHHhcCC---hh
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF-G-CRPNVTTCDTLITGLRRTGN---MN   76 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~-~~~~~~~~~~l~~~~~~~~~---~~   76 (363)
                      +...+|.+.+..+.+.  .|.+......+.-...+.|+.++|.++|+..... + -.++.....-++..|.+.+.   ..
T Consensus       356 ~~~~~~~~~~~~~y~~--~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~  433 (987)
T PRK09782        356 RNKAEALRLARLLYQQ--EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPA  433 (987)
T ss_pred             CchhHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchH
Confidence            4566777778888875  5667777777878888999999999999998763 1 12233334466777766654   22


Q ss_pred             HHHHH----------------------HHHHHhccCCCCCccCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 044256           77 LTLKL----------------------HQEMVNGMGDFGGIYKP--NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN  132 (363)
Q Consensus        77 ~a~~~----------------------~~~~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  132 (363)
                      ++..+                      ++.....-.    ..++  +...|..+..++.. ++.++|...+.+.....+.
T Consensus       434 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~----~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd  508 (987)
T PRK09782        434 KVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLG----DMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPD  508 (987)
T ss_pred             HHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcc----cCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCc
Confidence            22222                      222222110    0144  67788888888877 8899999988888766433


Q ss_pred             cch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 044256          133 ANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLING  206 (363)
Q Consensus       133 ~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  206 (363)
                      ...      .+...|++++|...++++...  +|+...+..+...+.+.|+.+.|...++...+.. +++...+..+...
T Consensus       509 ~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~  585 (987)
T PRK09782        509 AWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQ  585 (987)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHH
Confidence            211      335799999999999998665  4455556777888899999999999999998874 2233333344444


Q ss_pred             HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHH
Q 044256          207 YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLI  286 (363)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  286 (363)
                      ..+.|++++|...+++.++..              |+...+..+..++.+.|++++|+..+++..... |.+...+..+.
T Consensus       586 l~~~Gr~~eAl~~~~~AL~l~--------------P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG  650 (987)
T PRK09782        586 RYIPGQPELALNDLTRSLNIA--------------PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALG  650 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC--------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            556699999999998887654              778889999999999999999999999999886 77788999999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          287 RGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       287 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      .++...|++++|...+++..+.. +-+...+..+..++...|++++|...|++..+  +.|+.
T Consensus       651 ~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~  710 (987)
T PRK09782        651 YALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQ  710 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCC
Confidence            99999999999999999999874 45788999999999999999999999999998  45654

>TIGR00540 hemY_coli hemY protein

Probab=99.77  E-value=6.9e-15  Score=125.20  Aligned_cols=287  Identities=9%  Similarity=-0.046  Sum_probs=176.1

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--cHHHHHHHHHhcCChhHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT--TCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~   79 (363)
                      |+++.|.+.+....+.  .|.....+-....++.+.|+++.|.+.+++..+.  .|+..  ........+...|+++.|.
T Consensus        98 g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        98 GDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             CCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            5666666666665554  3312233334445555666666666666665543  23332  2222355555666666666


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCC
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLN  159 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (363)
                      ..++.+.+..       |.+..++..+...+.+.|+++.|.+.++.+.+.+..                           
T Consensus       174 ~~l~~l~~~~-------P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~---------------------------  219 (409)
T TIGR00540       174 HGVDKLLEMA-------PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF---------------------------  219 (409)
T ss_pred             HHHHHHHHhC-------CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC---------------------------
Confidence            6666666643       334555666666666666666666666666654322                           


Q ss_pred             CchhhHH-HHHH---HHHhcCCHHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHH
Q 044256          160 PVIFTYT-PLLN---GYCLVGKVNVAIALFDSMARKG---FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIF  232 (363)
Q Consensus       160 ~~~~~~~-~li~---~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  232 (363)
                      +. ..+. .-..   .....+..+.....+..+.+..   .+.+...+..+...+...|+.++|.+++++..+..     
T Consensus       220 ~~-~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-----  293 (409)
T TIGR00540       220 DD-EEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-----  293 (409)
T ss_pred             CH-HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-----
Confidence            11 1111 1111   1122222232333444444331   12377788888889999999999998888877654     


Q ss_pred             HHhHhcCCCCChHHH---HHHHHHHHhcCCHHHHHHHHHHHHhccCcchH--HHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          233 NEMKLCNVVPETFTC---NIFIDGLCKNGHVLEVMELFPTLEISNCELFV--EIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       233 ~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                               |+....   ..........++.+.+.+.++...+.. +-|+  ....++...+.+.|++++|.+.|+....
T Consensus       294 ---------pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a  363 (409)
T TIGR00540       294 ---------GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAA  363 (409)
T ss_pred             ---------CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH
Confidence                     554321   112222334577888888888877663 5555  6777889999999999999999996444


Q ss_pred             CCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          308 KNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       308 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ....|+...+..+...+.+.|+.++|.+++++...
T Consensus       364 ~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       364 CKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             hhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44478888888999999999999999999998654

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

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

Probab=99.76  E-value=1.2e-17  Score=135.29  Aligned_cols=256  Identities=13%  Similarity=0.029  Sum_probs=112.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+++++........|.++..|..+.......++++.|...++++...+ +-+...+..++.. ...+++++|.+
T Consensus        21 ~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~~A~~   98 (280)
T PF13429_consen   21 RGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPEEALK   98 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccccccccc
Confidence            478999999997665553246577788888888889999999999999999875 2356667777777 78999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      +++...+.        .++...+..++..+.+.++++++.++++.+....                          ..+.
T Consensus        99 ~~~~~~~~--------~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~--------------------------~~~~  144 (280)
T PF13429_consen   99 LAEKAYER--------DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELP--------------------------AAPD  144 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T-----------------------------T
T ss_pred             cccccccc--------ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhcc--------------------------CCCC
Confidence            99887663        4567778888999999999999999999977531                          1245


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      +...|..+...+.+.|+.++|++.+++..+.. +.|......++..+...|+.+++..+++...+..             
T Consensus       145 ~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-------------  210 (280)
T PF13429_consen  145 SARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-------------  210 (280)
T ss_dssp             -HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--------------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-------------
Confidence            67788889999999999999999999998873 2257788889999999999999887777665542             


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      +.++..+..+..++...|+.++|+..|++..+.. +.|+.+...+..++...|+.++|.++.+++..
T Consensus       211 ~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  211 PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            3566788899999999999999999999998875 77899999999999999999999999887654

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

Probab=99.76  E-value=3.4e-14  Score=123.15  Aligned_cols=318  Identities=14%  Similarity=0.060  Sum_probs=245.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..++.++.+.  .|.++..|.+|..+|-..|+.+++...+-.....+ +.|...|..+.....+.|++++|.-
T Consensus       152 rg~~eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHH
Confidence            48999999999999997  78789999999999999999999999885554433 4566789999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------------hhhccCChHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------------LLCKKTKLVEANR  148 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~~~~~~~a~~  148 (363)
                      +|.+.++..       +++...+-.-+..|-+.|+...|...|.++....+..+-            .+...++-+.|.+
T Consensus       229 cy~rAI~~~-------p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  229 CYSRAIQAN-------PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHhcC-------CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999975       667666667788899999999999999999987552222            4455666688888


Q ss_pred             HHHHHHHcC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHH--------------------------H
Q 044256          149 LLELMMQRG-LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSY--------------------------S  201 (363)
Q Consensus       149 ~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------------------------~  201 (363)
                      .++.....+ -..+...++.++..+.+...++.+......+......+|..-|                          .
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            888877632 2345667889999999999999999888877662222222111                          1


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC--CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH
Q 044256          202 VLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN--VVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV  279 (363)
Q Consensus       202 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  279 (363)
                      .++-++......+....            +...+....  +.-+...|.-+..++...|++.+|+.+|..+......-+.
T Consensus       382 rl~icL~~L~~~e~~e~------------ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~  449 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEA------------LLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNA  449 (895)
T ss_pred             hHhhhhhcccccchHHH------------HHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccch
Confidence            12222333333333322            222333333  2335667888999999999999999999999987656667


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      ..|--+..+|...|..++|.+.|+.+.... +.+...-.+|...+.+.|++++|.+.+..+.
T Consensus       450 ~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  450 FVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            899999999999999999999999999874 4456666777788899999999999999865

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=2.9e-14  Score=113.80  Aligned_cols=331  Identities=15%  Similarity=0.189  Sum_probs=242.4

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHH--hcCChh-HHHHHHHHHHhccCCCCCc-
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLR--RTGNMN-LTLKLHQEMVNGMGDFGGI-   95 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~--~~~~~~-~a~~~~~~~~~~~~~~~~~-   95 (363)
                      .|..+.+=|.|+. +...|..+++.-+|+.|.+.|+..+...-..|++.-+  ...+.- .-++.|-.|.+.+.+..+. 
T Consensus       112 ~~~~V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW  190 (625)
T KOG4422|consen  112 DPLQVETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW  190 (625)
T ss_pred             CchhhcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc
Confidence            4545667777777 4667889999999999999987777766555554433  222221 1223333344333322111 


Q ss_pred             ------------cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----hhhccCChHHHHHHHHHHHHcCCC
Q 044256           96 ------------YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----LLCKKTKLVEANRLLELMMQRGLN  159 (363)
Q Consensus        96 ------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~~~a~~~~~~~~~~~~~  159 (363)
                                  .+.+..++..+|.+.++--..+.|.+++++-.........    .+.....+....+++.+|.+..+.
T Consensus       191 K~G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  191 KSGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMT  270 (625)
T ss_pred             ccccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcC
Confidence                        4667889999999999999999999999998876554443    334444555568899999999999


Q ss_pred             CchhhHHHHHHHHHhcCCHHH----HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHH-HHHHHHHHHhhHHHHHHH
Q 044256          160 PVIFTYTPLLNGYCLVGKVNV----AIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEA-MNVSREMILNGFKKIFNE  234 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~  234 (363)
                      ||..|+|+++.+..+.|+++.    |.+++.+|.+-|+.|+..+|..+|..+++-++..+. ..++.        ++.+.
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~--------dI~N~  342 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIN--------DIQNS  342 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHH--------HHHHh
Confidence            999999999999999998775    566788999999999999999999999998887663 22222        33444


Q ss_pred             hHhcCCCC----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----Ccch---HHHHHHHHHHHHhcCChHHHHHHHH
Q 044256          235 MKLCNVVP----ETFTCNIFIDGLCKNGHVLEVMELFPTLEISN----CELF---VEIFNSLIRGCCKFGIFEIASELFN  303 (363)
Q Consensus       235 ~~~~~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~~~~~~a~~~~~  303 (363)
                      +..+..+|    |...|...++.|.+..+.+-|.++..-+....    ++|+   ..-|..+....++....+.-...|+
T Consensus       343 ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~  422 (625)
T KOG4422|consen  343 LTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYE  422 (625)
T ss_pred             hccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43333333    45567778899999999999988877665331    2333   2346778888888899999999999


Q ss_pred             HhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          304 KLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       304 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      .|.-.-.-|+..+...++++....|.++-.-+++..+...|..-+...-..++.-+
T Consensus       423 ~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L  478 (625)
T KOG4422|consen  423 DLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLL  478 (625)
T ss_pred             HhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            99877677899999999999999999999999999999887554444444444333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=9.4e-14  Score=110.99  Aligned_cols=329  Identities=14%  Similarity=0.143  Sum_probs=193.5

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhH----HHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNL----TLK   80 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~   80 (363)
                      +.|..++.+.......- +..+||.+|.+-.-..    -.++..+|.+..+.||..|||+++++..+.|+++.    |.+
T Consensus       224 ERA~~L~kE~~~~k~kv-~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalq  298 (625)
T KOG4422|consen  224 ERARELYKEHRAAKGKV-YREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQ  298 (625)
T ss_pred             HHHHHHHHHHHHhhhee-eHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHH
Confidence            44555555444443333 4555555554432211    14455556666666677777777776666665543    345


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHH-HHHHHHHHHH----cCCCc---ch---------hhhccCCh
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQ-TKDLFMEMKD----KGINA---NT---------LLCKKTKL  143 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~----~~~~~---~~---------~~~~~~~~  143 (363)
                      ++.+|++.|      +.|...+|..+|..+.+.++..+ |..++.++..    ..+.|   +.         ++....+.
T Consensus       299 il~EmKeiG------VePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~  372 (625)
T KOG4422|consen  299 ILGEMKEIG------VEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDL  372 (625)
T ss_pred             HHHHHHHhC------CCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhH
Confidence            566666666      66666677766666666665532 3333333322    11222   11         33455555


Q ss_pred             HHHHHHHHHHHHcC----CCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHH
Q 044256          144 VEANRLLELMMQRG----LNPV---IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEA  216 (363)
Q Consensus       144 ~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  216 (363)
                      +.|.++..-+....    +.|+   ..-|..+....++....+....+|+.|.-+-.-|+..+...++++....++++-.
T Consensus       373 ~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~i  452 (625)
T KOG4422|consen  373 ELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVI  452 (625)
T ss_pred             HHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhH
Confidence            55655554443221    2233   2334556666777777788888888888777778888888899988888999888


Q ss_pred             HHHHHHHHHhhH-------HHHHHHhHhcCCCCChHHHHHHHHHHHhc-CCHHHH-HHHHHHHHhccCcchHHHHHHHHH
Q 044256          217 MNVSREMILNGF-------KKIFNEMKLCNVVPETFTCNIFIDGLCKN-GHVLEV-MELFPTLEISNCELFVEIFNSLIR  287 (363)
Q Consensus       217 ~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a-~~~~~~~~~~~~~~~~~~~~~li~  287 (363)
                      -+++..+...|.       +.++..|......|+...-..+-...++. -++.++ ...-.++.+...+  ....+.++.
T Consensus       453 pRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~--~t~l~~ia~  530 (625)
T KOG4422|consen  453 PRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWP--ATSLNCIAI  530 (625)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCC--hhHHHHHHH
Confidence            888888876663       44555555555445433222222222211 122222 2223344444433  456677777


Q ss_pred             HHHhcCChHHHHHHHHHhhhCC-CCccHHHHH---HHHHHHHccCChhHHHHHHHHHHHcCCC
Q 044256          288 GCCKFGIFEIASELFNKLSCKN-LVADVVAYN---ILIHALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       288 ~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      .+.+.|..++|.+++..+.+.+ --|-....|   -++....+.+++..|..+++-|...+..
T Consensus       531 Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  531 LLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLP  593 (625)
T ss_pred             HHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCch
Confidence            8899999999999999996543 233333444   5666777889999999999999776543

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

Probab=99.73  E-value=3.9e-14  Score=108.96  Aligned_cols=290  Identities=12%  Similarity=0.044  Sum_probs=175.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc------cHHHHHHHHHhcCCh
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT------TCDTLITGLRRTGNM   75 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------~~~~l~~~~~~~~~~   75 (363)
                      ++.++|.++|-.|.+.  .|.+.++--+|.+.|.+.|..++|+++.+.+..+   ||..      ....|..-|...|-+
T Consensus        49 ~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          49 NQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             cCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            4556677777777664  5545666666777777777777777777766653   4421      223345556666777


Q ss_pred             hHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH
Q 044256           76 NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        76 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  155 (363)
                      +.|..+|..+.+.+       .--......|+..|-...+|++|+++-+++.+.+..+..                    
T Consensus       124 DRAE~~f~~L~de~-------efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~--------------------  176 (389)
T COG2956         124 DRAEDIFNQLVDEG-------EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYR--------------------  176 (389)
T ss_pred             hHHHHHHHHHhcch-------hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccch--------------------
Confidence            77777777666543       223445666667777777777777776666655433322                    


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                         ..-...|.-+...+....+++.|..++.+..+.+. ..+..-..+.+.....|+++.|++.++.+.+.+.       
T Consensus       177 ---~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~-------  245 (389)
T COG2956         177 ---VEIAQFYCELAQQALASSDVDRARELLKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNP-------  245 (389)
T ss_pred             ---hHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhCh-------
Confidence               00023445555556667777888888777766521 1233333445566777888888888888776651       


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVV  315 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  315 (363)
                           .--+.+...|..+|...|++++....+..+.+..  +....-..+-..-....-.+.|...+.+-...  .|+..
T Consensus       246 -----~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~  316 (389)
T COG2956         246 -----EYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMR  316 (389)
T ss_pred             -----HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHH
Confidence                 1123456667777888888888888777777653  23333344444444445556666655555544  57777


Q ss_pred             HHHHHHHHHHc---cCChhHHHHHHHHHHHc
Q 044256          316 AYNILIHALGK---EGQIKKENYLLLSMEEN  343 (363)
Q Consensus       316 ~~~~li~~~~~---~g~~~~a~~~~~~m~~~  343 (363)
                      .+..++..-..   .|...+-+..++.|...
T Consensus       317 gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         317 GFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            77777775443   34566666677777644

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=5e-14  Score=129.85  Aligned_cols=266  Identities=9%  Similarity=-0.040  Sum_probs=164.2

Q ss_pred             CCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           20 RPL--NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        20 ~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      .|.  ++..|..+..++.. +++++|+..|.+....  .|+......+...+...|++++|...|+++..        .+
T Consensus       471 ~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~--------~~  539 (987)
T PRK09782        471 MSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISL--------HD  539 (987)
T ss_pred             CCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhc--------cC
Confidence            455  67778888887776 7888888877777765  46544333344455678888888888888765        34


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      |+...+..+..++.+.|++++|...+++..+..+.                            +...+..+.......|+
T Consensus       540 p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~----------------------------~~~l~~~La~~l~~~Gr  591 (987)
T PRK09782        540 MSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLG----------------------------DNALYWWLHAQRYIPGQ  591 (987)
T ss_pred             CCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc----------------------------cHHHHHHHHHHHHhCCC
Confidence            44555666677778888888888888887764311                            11222222333334467


Q ss_pred             HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      +++|...+++..+.  .|+...+..+..++.+.|++++|...+++.....             +.+...++.+..++...
T Consensus       592 ~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-------------Pd~~~a~~nLG~aL~~~  656 (987)
T PRK09782        592 PELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-------------PNNSNYQAALGYALWDS  656 (987)
T ss_pred             HHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHC
Confidence            77777776666654  3455566666666666777777766666665543             22344555555566666


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc-HHHHHHHHHHHHccCChhHHHHH
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD-VVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      |++++|+..+++..+.. |-+...+..+..++...|++++|...+++.....  |+ ..+.-.......+..+++.|.+-
T Consensus       657 G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g~~~~~~~~~~~a~~~  733 (987)
T PRK09782        657 GDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTPEQNQQRFNFRRLHEE  733 (987)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhhHHHHHHHHHHHHHHH
Confidence            67777777766666554 4455666666666667777777777776666542  32 23333334444455555555555


Q ss_pred             HHHHHH
Q 044256          337 LLSMEE  342 (363)
Q Consensus       337 ~~~m~~  342 (363)
                      +.+-..
T Consensus       734 ~~r~~~  739 (987)
T PRK09782        734 VGRRWT  739 (987)
T ss_pred             HHHHhh
Confidence            555443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.72  E-value=2.5e-13  Score=122.76  Aligned_cols=175  Identities=10%  Similarity=0.010  Sum_probs=133.0

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-CcccHHHH--HHHHHhcCChhH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRP-NVTTCDTL--ITGLRRTGNMNL   77 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~l--~~~~~~~~~~~~   77 (363)
                      .|+++.|++.|+.+.+.  .|.++.....++..+...|+.++|+..+++..    .| +...+..+  ...+...|++++
T Consensus        47 ~Gd~~~Al~~L~qaL~~--~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         47 AGDTAPVLDYLQEESKA--GPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             CCCHHHHHHHHHHHHhh--CccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            48889999999999886  77443233388888888899999999999988    33 33333334  557888899999


Q ss_pred             HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHH
Q 044256           78 TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLE  151 (363)
Q Consensus        78 a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~  151 (363)
                      |+++|+++.+..       +.+...+..++..+...++.++|++.++++.........      .+...++..+|++.++
T Consensus       121 Aiely~kaL~~d-------P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        121 ALALWQSSLKKD-------PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             HHHHHHHHHhhC-------CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            999999999865       555777778888899999999999999998876544222      2333566666999999


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                      ++.+.. +.+...+..+..++.+.|-...|.++..+-.
T Consensus       194 kll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p  230 (822)
T PRK14574        194 EAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENP  230 (822)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCc
Confidence            998875 4457777888888999999998888777643

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

Probab=99.71  E-value=5.2e-13  Score=105.87  Aligned_cols=299  Identities=10%  Similarity=-0.015  Sum_probs=220.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|+|.+|+++..+..+.+..|  ...|..-.++.-+.|+.+.+-.++.+..+.--.++....-+..+.....|+.+.|..
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--VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch--HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            488888999888888876665  566777777788888999999988888775223444455666677788888888988


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      -++++.+..       +.++.+.....++|.+.|++.....++.++.+.+.-.+.         ++    ..+       
T Consensus       175 ~v~~ll~~~-------pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~---------e~----~~l-------  227 (400)
T COG3071         175 NVDQLLEMT-------PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDE---------EA----ARL-------  227 (400)
T ss_pred             HHHHHHHhC-------cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChH---------HH----HHH-------
Confidence            888888765       666788888889999999999999999998887665442         00    011       


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      ...+|..+++-....+..+.-...++..... .+.++..-..++.-+.++|+.++|.++.++..+.+             
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~-------------  293 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQ-------------  293 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhc-------------
Confidence            1246777777777777777766777766544 34456667777788889999999987777766554             


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                       .|.. .. ..-.+.+-++...-++..++-.+.. +.++..+.+|...|.+.+.+.+|...|+...+.  .|+..+|+.+
T Consensus       294 -~D~~-L~-~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~l  367 (400)
T COG3071         294 -WDPR-LC-RLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAEL  367 (400)
T ss_pred             -cChh-HH-HHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHH
Confidence             3433 21 2233556777777777777766553 556688889999999999999999999977775  6899999999


Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCC
Q 044256          321 IHALGKEGQIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~g~~p~  348 (363)
                      ..++.+.|+..+|.++.++.+..-.+|+
T Consensus       368 a~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         368 ADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999888775444444

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

Probab=99.71  E-value=1.2e-13  Score=120.68  Aligned_cols=351  Identities=10%  Similarity=0.037  Sum_probs=206.8

Q ss_pred             hhhhhHHHHHHHHHHcCC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--cHHHHHHHHHhcCChhHH
Q 044256            2 SKVLGALMAFGSFIRRCY-RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT--TCDTLITGLRRTGNMNLT   78 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~~~~~~~a   78 (363)
                      |+++.++.+...+..... .+.-+..|..+.++|-..|++++|...|.+..+.  .|+..  .+.-|.+.+.+.|+.+.+
T Consensus       284 ~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  284 KDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEES  361 (1018)
T ss_pred             ccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHH
Confidence            455666666655554321 1112344666666666666666666666555544  33332  233455666666666666


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC----CHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHH
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR----LVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANR  148 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~  148 (363)
                      ...|+.+....       +.+..+...|...|+..+    ..+.|..++.+..+..+....      -+...++.-.++.
T Consensus       362 ~~~fEkv~k~~-------p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~  434 (1018)
T KOG2002|consen  362 KFCFEKVLKQL-------PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLD  434 (1018)
T ss_pred             HHHHHHHHHhC-------cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHH
Confidence            66666666542       444555555555555543    334444444444443211111      1223334333444


Q ss_pred             HHHHHH----HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCcH------hHHHHHHHHHHhcCChhH
Q 044256          149 LLELMM----QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK---GFMPDV------FSYSVLINGYCKNFNVEE  215 (363)
Q Consensus       149 ~~~~~~----~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~  215 (363)
                      ++..+.    ..+.++.....|.+.......|+++.|...|+.....   ...+|.      .+--.+...+-..++.+.
T Consensus       435 ~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~  514 (1018)
T KOG2002|consen  435 AYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEV  514 (1018)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhH
Confidence            444332    3344455667777777777777777777777766543   111222      111122233333445555


Q ss_pred             HHHHHHHHHHhhH---------------------------------------HHHHH-----------------Hh-Hhc
Q 044256          216 AMNVSREMILNGF---------------------------------------KKIFN-----------------EM-KLC  238 (363)
Q Consensus       216 a~~~~~~~~~~~~---------------------------------------~~~~~-----------------~~-~~~  238 (363)
                      |...+..+++..+                                       ..++.                 .. .+.
T Consensus       515 A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~  594 (1018)
T KOG2002|consen  515 AEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKT  594 (1018)
T ss_pred             HHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhh
Confidence            5555555544333                                       11111                 11 111


Q ss_pred             CCCCChHHHHHHHHHHHh------------cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          239 NVVPETFTCNIFIDGLCK------------NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      ...+|+.+..+|...|..            .+..++|+++|.++.+.. |.|...-+-+...++..|++..|..+|.+++
T Consensus       595 ~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVr  673 (1018)
T KOG2002|consen  595 STKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVR  673 (1018)
T ss_pred             ccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHH
Confidence            122455555555554432            234678999999998876 7788888999999999999999999999999


Q ss_pred             hCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhhcC
Q 044256          307 CKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN-GCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       307 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~~  363 (363)
                      +.. ..+..+|..+..+|...|+|-.|+++|+...+. ...-+......|-+++.+.|
T Consensus       674 Ea~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~  730 (1018)
T KOG2002|consen  674 EAT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAG  730 (1018)
T ss_pred             HHH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhh
Confidence            874 236778999999999999999999999998876 44567778888888877653

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

Probab=99.70  E-value=1.4e-14  Score=116.61  Aligned_cols=341  Identities=12%  Similarity=0.067  Sum_probs=228.7

Q ss_pred             hhHHHHHHHHHHcCCCCCchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------ccHHHHHHHHHhcCChhH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVT-FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV------TTCDTLITGLRRTGNMNL   77 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~l~~~~~~~~~~~~   77 (363)
                      .+|+..++-+.+....| +... -..+...+.+..++.+|+.+|+..+..  .|++      ...+.+.-.+.+.|+++.
T Consensus       218 ~ealntyeiivknkmf~-nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil~nigvtfiq~gqy~d  294 (840)
T KOG2003|consen  218 AEALNTYEIIVKNKMFP-NAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKILNNIGVTFIQAGQYDD  294 (840)
T ss_pred             HHHhhhhhhhhcccccC-CCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHHhhcCeeEEecccchh
Confidence            45566666666655556 4333 233455666777778888877766654  3332      233444455667788888


Q ss_pred             HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----------------------
Q 044256           78 TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----------------------  135 (363)
Q Consensus        78 a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------  135 (363)
                      |+..|+...+        ..|+..+--.|+-++...|+-++..+.|.+|+.....++.                      
T Consensus       295 ainsfdh~m~--------~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd  366 (840)
T KOG2003|consen  295 AINSFDHCME--------EAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKND  366 (840)
T ss_pred             hHhhHHHHHH--------hCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhH
Confidence            8888887777        3567666555666666777888888888887765443332                      


Q ss_pred             -------------------------------------------------------------hhhccCChHHHHHHHHHHH
Q 044256          136 -------------------------------------------------------------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus       136 -------------------------------------------------------------~~~~~~~~~~a~~~~~~~~  154 (363)
                                                                                   .+.+.|+++.|.++++-+.
T Consensus       367 ~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~  446 (840)
T KOG2003|consen  367 HLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFE  446 (840)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHH
Confidence                                                                         4567899999998887665


Q ss_pred             HcCCCCch---------------------hhH----------HHH-----HHHHHhcCCHHHHHHHHHHHHHcCCCCcHh
Q 044256          155 QRGLNPVI---------------------FTY----------TPL-----LNGYCLVGKVNVAIALFDSMARKGFMPDVF  198 (363)
Q Consensus       155 ~~~~~~~~---------------------~~~----------~~l-----i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  198 (363)
                      +.+-..-.                     ..|          |.-     .+.....|++++|...|++.......-...
T Consensus       447 ~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ea  526 (840)
T KOG2003|consen  447 KKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEA  526 (840)
T ss_pred             hccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHH
Confidence            54321111                     111          110     011124799999999999988763222222


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHh---hH-----------------HHHHHHhHhcCC-CCChHHHHHHHHHHHhc
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILN---GF-----------------KKIFNEMKLCNV-VPETFTCNIFIDGLCKN  257 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-----------------~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~  257 (363)
                      .|+.= -.+-..|+.++|++.|-++...   ..                 ..+-..|....+ +.|+...+-|...|-+.
T Consensus       527 lfnig-lt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydqe  605 (840)
T KOG2003|consen  527 LFNIG-LTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQE  605 (840)
T ss_pred             HHHhc-ccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcc
Confidence            33332 2466789999999988765321   11                 233333444444 44677888888999999


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH-HHccCChhHHHHH
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA-LGKEGQIKKENYL  336 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~  336 (363)
                      |+..+|++.+-.--+. +|.+..+...|...|....-++++..+|++..-.  .|+..-|..++.. +.+.|++++|+.+
T Consensus       606 gdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaali--qp~~~kwqlmiasc~rrsgnyqka~d~  682 (840)
T KOG2003|consen  606 GDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALI--QPNQSKWQLMIASCFRRSGNYQKAFDL  682 (840)
T ss_pred             cchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhc--CccHHHHHHHHHHHHHhcccHHHHHHH
Confidence            9999998876554433 5778888888988899888899999999987654  7999999998864 5578999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          337 LLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       337 ~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      |+....+ ++-|...+..|++.+..
T Consensus       683 yk~~hrk-fpedldclkflvri~~d  706 (840)
T KOG2003|consen  683 YKDIHRK-FPEDLDCLKFLVRIAGD  706 (840)
T ss_pred             HHHHHHh-CccchHHHHHHHHHhcc
Confidence            9998875 77778888877776643

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

Probab=99.70  E-value=3.1e-14  Score=119.60  Aligned_cols=280  Identities=11%  Similarity=0.029  Sum_probs=191.9

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCcccHHHHHHHHHhcCChhHHHH-
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFG--CRPNVTTCDTLITGLRRTGNMNLTLK-   80 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~-   80 (363)
                      ..+|...|......  .+.+......+..+|...+++++|..+|+.+.+..  ..-+.++|.+.+--+-+    +-++. 
T Consensus       335 ~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  335 CREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            45666666664444  33244555666677777777777777777766541  01134455554433211    11122 


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      +-+.++...       +..+.+|-++..+|+-.++.+.|++.|++..+.                             .|
T Consensus       409 Laq~Li~~~-------~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl-----------------------------dp  452 (638)
T KOG1126|consen  409 LAQDLIDTD-------PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL-----------------------------DP  452 (638)
T ss_pred             HHHHHHhhC-------CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc-----------------------------CC
Confidence            222233322       444667777777777777777777777666653                             33


Q ss_pred             -chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHH---HHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          161 -VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSV---LINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       161 -~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                       ...+|+.+..-+.....+|.|...|+..+..    |+..|++   +...|.+.++++.|.-.|+++....         
T Consensus       453 ~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN---------  519 (638)
T KOG1126|consen  453 RFAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN---------  519 (638)
T ss_pred             ccchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC---------
Confidence             5788888888888888999999999887654    5555655   5567889999999988888877654         


Q ss_pred             hcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHH
Q 044256          237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVA  316 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  316 (363)
                          +.+.+....+...+.+.|+.++|+++++++.... +.|+..--.-+..+...+++++|+..++++.+. ++.+...
T Consensus       520 ----P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v  593 (638)
T KOG1126|consen  520 ----PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELKEL-VPQESSV  593 (638)
T ss_pred             ----ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHHHh-CcchHHH
Confidence                2355666677788888999999999999998776 555555555667777889999999999999886 3445667


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHcC
Q 044256          317 YNILIHALGKEGQIKKENYLLLSMEENG  344 (363)
Q Consensus       317 ~~~li~~~~~~g~~~~a~~~~~~m~~~g  344 (363)
                      |..+...|.+.|+.+.|+.-|--+.+..
T Consensus       594 ~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  594 FALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            7777789999999999999888888743

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=9.3e-13  Score=111.67  Aligned_cols=269  Identities=9%  Similarity=-0.017  Sum_probs=179.9

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCccc-HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH--HHHHHHHhc
Q 044256           37 EGNIRDASQLVKKMATFGCRPNVTT-CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG--SLIDGLCKD  113 (363)
Q Consensus        37 ~~~~~~a~~~~~~m~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~  113 (363)
                      .|+++.|.+.+....+..  +++.. |.....+..+.|+++.|.+.+.++.+        ..|+.....  .....+...
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~--------~~~~~~~~~~l~~a~l~l~~  166 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAE--------LADNDQLPVEITRVRIQLAR  166 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--------cCCcchHHHHHHHHHHHHHC
Confidence            466666665555544321  11122 22223333566666666666666655        234433222  224455566


Q ss_pred             CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256          114 RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF  193 (363)
Q Consensus       114 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  193 (363)
                      |+++.|...++++.+.                           . |-+...+..+...|.+.|+++.|..++..+.+.+.
T Consensus       167 g~~~~Al~~l~~~~~~---------------------------~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~  218 (398)
T PRK10747        167 NENHAARHGVDKLLEV---------------------------A-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHV  218 (398)
T ss_pred             CCHHHHHHHHHHHHhc---------------------------C-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCC
Confidence            6666666666666543                           2 33567888899999999999999999999998865


Q ss_pred             CCcHh-------HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHH
Q 044256          194 MPDVF-------SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMEL  266 (363)
Q Consensus       194 ~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  266 (363)
                      .++..       +|..++.......+.+...++++.+...             .+.++.....+...+...|+.++|.++
T Consensus       219 ~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-------------~~~~~~~~~~~A~~l~~~g~~~~A~~~  285 (398)
T PRK10747        219 GDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-------------TRHQVALQVAMAEHLIECDDHDTAQQI  285 (398)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-------------HhCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            43221       2233333333334444444444443222             135677888899999999999999999


Q ss_pred             HHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 044256          267 FPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      +++..+.  ++++...  ++.+....++.+++.+..+...+.. +-|+..+..+...+.+.|++++|.+.|+...+  ..
T Consensus       286 L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~  358 (398)
T PRK10747        286 ILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QR  358 (398)
T ss_pred             HHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cC
Confidence            9999874  5555322  3344446699999999999998774 55777888999999999999999999999998  68


Q ss_pred             CCHHHHHHHHHHHhhcC
Q 044256          347 LDVDTFNTLMISFLQKE  363 (363)
Q Consensus       347 p~~~~~~~ll~~~~~~~  363 (363)
                      |+..++..+-..+.+.|
T Consensus       359 P~~~~~~~La~~~~~~g  375 (398)
T PRK10747        359 PDAYDYAWLADALDRLH  375 (398)
T ss_pred             CCHHHHHHHHHHHHHcC
Confidence            99999888888777654

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

Probab=99.65  E-value=4.7e-12  Score=102.73  Aligned_cols=317  Identities=12%  Similarity=0.106  Sum_probs=204.2

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++..|.++|++..+-  .| +..+|++.|+.-.+.+.++.|..+|++..-.  .|++.+|.-....--+.|+...+.++
T Consensus       155 gNi~gaRqiferW~~w--~P-~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  155 GNIAGARQIFERWMEW--EP-DEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             cccHHHHHHHHHHHcC--CC-cHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            6777888888888774  77 8888888888888888888888888887754  57888887777777788888888888


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--hh-------hccCChHHHHHH---
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--LL-------CKKTKLVEANRL---  149 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~-------~~~~~~~~a~~~---  149 (363)
                      |+..++.-++    -..+...+.+....-.++..++.|.-+|+-.++.-+....  .+       -+-|+.....+.   
T Consensus       230 yerAie~~~~----d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  230 YERAIEFLGD----DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHhhh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            8877764210    0112334444444445566677777777666654332211  00       011221111111   


Q ss_pred             -----HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------------------------------
Q 044256          150 -----LELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKG--------------------------------  192 (363)
Q Consensus       150 -----~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------------------------------  192 (363)
                           ++..+..+ +.|-.+|.-.++.-...|+.+...++|+.....-                                
T Consensus       306 KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~er  384 (677)
T KOG1915|consen  306 KRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVER  384 (677)
T ss_pred             hhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence                 11111111 2333344444444444455555555555544431                                


Q ss_pred             -----------CCCcHhHHHHHHHHH----HhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          193 -----------FMPDVFSYSVLINGY----CKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       193 -----------~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                                 ++....||..+--.|    .++.+...|.+++...+              |..|...+|...|..-.+.
T Consensus       385 tr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--------------G~cPK~KlFk~YIelElqL  450 (677)
T KOG1915|consen  385 TRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--------------GKCPKDKLFKGYIELELQL  450 (677)
T ss_pred             HHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--------------ccCCchhHHHHHHHHHHHH
Confidence                       222223333222222    23344444444433332              5568888999999998999


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC-CCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN-LVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      ++++....+|++.++.+ |.|-.+|......-...|+.+.|..+|+-+.+.. +......|.+.|..-...|.++.|..+
T Consensus       451 ~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~L  529 (677)
T KOG1915|consen  451 REFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARAL  529 (677)
T ss_pred             hhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHH
Confidence            99999999999999887 7788999999888889999999999999988753 233466788888888889999999999


Q ss_pred             HHHHHHc
Q 044256          337 LLSMEEN  343 (363)
Q Consensus       337 ~~~m~~~  343 (363)
                      |+++++.
T Consensus       530 YerlL~r  536 (677)
T KOG1915|consen  530 YERLLDR  536 (677)
T ss_pred             HHHHHHh
Confidence            9999985

>TIGR00540 hemY_coli hemY protein

Probab=99.62  E-value=5.7e-12  Score=107.48  Aligned_cols=279  Identities=13%  Similarity=-0.038  Sum_probs=170.4

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCccc-HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchh--hHHHHHHHHHh
Q 044256           36 MEGNIRDASQLVKKMATFGCRPNVTT-CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVF--CYGSLIDGLCK  112 (363)
Q Consensus        36 ~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~ll~~~~~  112 (363)
                      ..|+++.|.+.+.+..+.  .|+... +-....+....|+.+.|.+.+.+..+.        .|+..  ..-.....+..
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--------~p~~~l~~~~~~a~l~l~  165 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--------AGNDNILVEIARTRILLA  165 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--------CCcCchHHHHHHHHHHHH
Confidence            345666666666555443  233222 222334445556666666666655442        23222  22223455555


Q ss_pred             cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256          113 DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKG  192 (363)
Q Consensus       113 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (363)
                      .|+++.|...++.+.+                           .. |-+..++..+...+...|+++.|.+.+..+.+.+
T Consensus       166 ~~~~~~Al~~l~~l~~---------------------------~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~  217 (409)
T TIGR00540       166 QNELHAARHGVDKLLE---------------------------MA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG  217 (409)
T ss_pred             CCCHHHHHHHHHHHHH---------------------------hC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Confidence            5666666655555554                           32 3355678889999999999999999999999986


Q ss_pred             CCCcHhHHHHHHHHH---HhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          193 FMPDVFSYSVLINGY---CKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPT  269 (363)
Q Consensus       193 ~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  269 (363)
                      ..+.......-..++   ...+..+++.+.+..+....        .. ..+.+...+..+...+...|+.++|.+++++
T Consensus       218 ~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~--------p~-~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~  288 (409)
T TIGR00540       218 LFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQ--------PR-HRRHNIALKIALAEHLIDCDDHDSAQEIIFD  288 (409)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHC--------CH-HHhCCHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            543332212111221   22222232222333322211        00 0113677888899999999999999999999


Q ss_pred             HHhccCcchHHH--HHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH--HHHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 044256          270 LEISNCELFVEI--FNSLIRGCCKFGIFEIASELFNKLSCKNLVADV--VAYNILIHALGKEGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       270 ~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  345 (363)
                      ..+.. +.+...  ...........++.+.+.+.++...+.. +-|+  ....++...+.+.|++++|.+.|+.......
T Consensus       289 ~l~~~-pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~  366 (409)
T TIGR00540       289 GLKKL-GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKE  366 (409)
T ss_pred             HHhhC-CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhc
Confidence            99864 333321  1122222334578889999998888763 3345  6677888999999999999999996444446


Q ss_pred             CCCHHHHHHHHHHHhhcC
Q 044256          346 ALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       346 ~p~~~~~~~ll~~~~~~~  363 (363)
                      .|+...+..+...+.+.|
T Consensus       367 ~p~~~~~~~La~ll~~~g  384 (409)
T TIGR00540       367 QLDANDLAMAADAFDQAG  384 (409)
T ss_pred             CCCHHHHHHHHHHHHHcC
Confidence            899998888877776543

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.

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

Probab=99.62  E-value=1.4e-11  Score=99.72  Aligned_cols=301  Identities=9%  Similarity=0.032  Sum_probs=199.8

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC-CchhhHHHHHHHHHhcC
Q 044256           36 MEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK-PNVFCYGSLIDGLCKDR  114 (363)
Q Consensus        36 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~  114 (363)
                      ...+.+++++=.+.....|++.+...-+....+.-...++++|+.+|+++...++     .+ .|..+|..++  |++..
T Consensus       239 el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDP-----YRl~dmdlySN~L--Yv~~~  311 (559)
T KOG1155|consen  239 ELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDP-----YRLDDMDLYSNVL--YVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-----CcchhHHHHhHHH--HHHhh
Confidence            3345555665566666666544444334444444556677777777777776541     11 2456666655  33332


Q ss_pred             CHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          115 LVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSM  188 (363)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (363)
                      .-.-+.-.-.-..-....|.+      .+.-.++.++|...|+..++.+ +.....|+.+..-|....+...|+.-++..
T Consensus       312 ~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  312 KSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             hHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            222111111111112344544      4556778888888888888875 344678888888888888889999888888


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 044256          189 ARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFP  268 (363)
Q Consensus       189 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  268 (363)
                      ++-. +.|-..|-.|.++|.-.+...=|+-.|++...-.             +.|...|.+|..+|.+.++.++|++.|+
T Consensus       391 vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-------------PnDsRlw~aLG~CY~kl~~~~eAiKCyk  456 (559)
T KOG1155|consen  391 VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-------------PNDSRLWVALGECYEKLNRLEEAIKCYK  456 (559)
T ss_pred             HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-------------CCchHHHHHHHHHHHHhccHHHHHHHHH
Confidence            8763 4477788888888888888888888888776543             4577889999999999999999999999


Q ss_pred             HHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CC-Ccc-HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          269 TLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NL-VAD-VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       269 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .....+ ..+...+..|...|-+.++..+|...|.+..+.    |. .|. .....-|..-+.+.+++++|.........
T Consensus       457 rai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  457 RAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            888777 456678888899999999999998888776542    22 221 22222244566788888888877666655


Q ss_pred             cCCCCCHHHHHHHHHHHhh
Q 044256          343 NGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       343 ~g~~p~~~~~~~ll~~~~~  361 (363)
                      .  .+...--..|++.+.+
T Consensus       536 ~--~~e~eeak~LlReir~  552 (559)
T KOG1155|consen  536 G--ETECEEAKALLREIRK  552 (559)
T ss_pred             C--CchHHHHHHHHHHHHH
Confidence            2  5666666666666544

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

Probab=99.62  E-value=5.6e-12  Score=97.36  Aligned_cols=261  Identities=14%  Similarity=0.068  Sum_probs=193.7

Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-----------hhhcc
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-----------LLCKK  140 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~  140 (363)
                      +++.++|.+.|-+|.+.+       +.+..+--+|.+.|-+.|..+.|+++.+.+.+..-.+..           -|...
T Consensus        48 s~Q~dKAvdlF~e~l~~d-------~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~a  120 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-------PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAA  120 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-------chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHh
Confidence            467888888888888754       445566667788888888888888888887764322222           45567


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH----hHHHHHHHHHHhcCChhHH
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV----FSYSVLINGYCKNFNVEEA  216 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a  216 (363)
                      |-++.|+.+|..+.+.+ .--......|+..|-...+|++|+++-+++.+.+-.+..    ..|.-+...+....+.+.|
T Consensus       121 Gl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A  199 (389)
T COG2956         121 GLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRA  199 (389)
T ss_pred             hhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHH
Confidence            88888888888887754 223456788999999999999999999998887544432    3455666667778889999


Q ss_pred             HHHHHHHHHhhHHHHHHHhHhcCCCCCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCCh
Q 044256          217 MNVSREMILNGFKKIFNEMKLCNVVPET-FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF  295 (363)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  295 (363)
                      ..++.+..+.+              |+. ..-..+.+.....|+++.|.+.|+.+.+.+..--+.+...|..+|.+.|+.
T Consensus       200 ~~~l~kAlqa~--------------~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~  265 (389)
T COG2956         200 RELLKKALQAD--------------KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP  265 (389)
T ss_pred             HHHHHHHHhhC--------------ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCH
Confidence            98888887765              433 333445678889999999999999999887556677888999999999999


Q ss_pred             HHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          296 EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       296 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      ++....+..+.+..  ++...-..+...-....-.+.|...+.+-+.  -+|+..-+..|+..
T Consensus       266 ~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~--r~Pt~~gf~rl~~~  324 (389)
T COG2956         266 AEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLR--RKPTMRGFHRLMDY  324 (389)
T ss_pred             HHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHh--hCCcHHHHHHHHHh
Confidence            99999999988763  4444444555544444456667776666665  37999999888864

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

Probab=99.61  E-value=1e-11  Score=101.06  Aligned_cols=341  Identities=13%  Similarity=0.014  Sum_probs=206.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      +|++++|++.|.++.+.  .|..+..|.....+|...|+|+++.+--.+.++.  .|+ +..+..-.+++-..|++++|+
T Consensus       128 ~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~lg~~~eal  203 (606)
T KOG0547|consen  128 NKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQLGKFDEAL  203 (606)
T ss_pred             cccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhhccHHHHH
Confidence            47899999999999997  7723888999999999999999999988887765  454 224444455555666665554


Q ss_pred             HHHH------------------------------HHHh-ccCCCCCccCCchhhHHHHHHHHHh----------------
Q 044256           80 KLHQ------------------------------EMVN-GMGDFGGIYKPNVFCYGSLIDGLCK----------------  112 (363)
Q Consensus        80 ~~~~------------------------------~~~~-~~~~~~~~~~~~~~~~~~ll~~~~~----------------  112 (363)
                      .=..                              +-.. .+    ..+-|+....++....+..                
T Consensus       204 ~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr----~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~  279 (606)
T KOG0547|consen  204 FDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENR----PPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAA  279 (606)
T ss_pred             HhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccC----CCCCCcHHHHHHHHhhccccccccccCCCccchhh
Confidence            3211                              0011 11    0122332222222222110                


Q ss_pred             ---------cC---CHHHHHHHHHHHHHc---CCCcch-----------------hhhccCChHHHHHHHHHHHHcCCCC
Q 044256          113 ---------DR---LVDQTKDLFMEMKDK---GINANT-----------------LLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus       113 ---------~~---~~~~a~~~~~~~~~~---~~~~~~-----------------~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                               .+   .+..|.+.+.+-...   ....+.                 ...-.|+.-.|..-|+..+.....+
T Consensus       280 l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~  359 (606)
T KOG0547|consen  280 LAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAF  359 (606)
T ss_pred             HHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCccc
Confidence                     01   122233322221111   111110                 3345677777777777777765333


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH------------
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF------------  228 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------  228 (363)
                      +. .|--+..+|....+.++..+.|+...+.+. -++.+|..-.+.+.-.+++++|..-|++.+..++            
T Consensus       360 ~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a  437 (606)
T KOG0547|consen  360 NS-LYIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCA  437 (606)
T ss_pred             ch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHH
Confidence            32 255566667777777777777777666532 2445555555555556666666666666654443            


Q ss_pred             ----------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-------chHHHHHHHHHHHHh
Q 044256          229 ----------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-------LFVEIFNSLIRGCCK  291 (363)
Q Consensus       229 ----------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~~li~~~~~  291 (363)
                                ...|++.++ .++..+.+|+....++..+++++.|.+.|+..++..-.       +.+.+.-.++..- -
T Consensus       438 ~Yr~~k~~~~m~~Fee~kk-kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-w  515 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKK-KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-W  515 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHH-hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-h
Confidence                      222333222 34456778998999999999999999999988765311       1222223333332 3


Q ss_pred             cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          292 FGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       292 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      .+++..|..++.+..+.+ +.....|.+|...-.+.|+.++|+++|++....     ..|-.-++++|
T Consensus       516 k~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~l-----Art~~E~~~a~  577 (606)
T KOG0547|consen  516 KEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQL-----ARTESEMVHAY  577 (606)
T ss_pred             hhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-----HHhHHHHHHHH
Confidence            388999999999998875 335667889999999999999999999987652     33444444444

>PRK12370 invasion protein regulator; Provisional

Probab=99.61  E-value=2e-12  Score=114.34  Aligned_cols=267  Identities=10%  Similarity=-0.015  Sum_probs=182.9

Q ss_pred             CCchhhHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHH---------hcCChhHHHHHHHHH
Q 044256           21 PLNDVTFNSLIKGFCM-----EGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLR---------RTGNMNLTLKLHQEM   85 (363)
Q Consensus        21 p~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~   85 (363)
                      |.+...|...+++...     .+++++|+..|++..+.  .|+ ...|..+..++.         ..+++++|...+++.
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            3366777777666422     35689999999999876  454 445555555443         224478999999999


Q ss_pred             HhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhH
Q 044256           86 VNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTY  165 (363)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (363)
                      .+..       +.+...+..+...+...|++++|...|++..+..                            +.+...+
T Consensus       331 l~ld-------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~----------------------------P~~~~a~  375 (553)
T PRK12370        331 TELD-------HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS----------------------------PISADIK  375 (553)
T ss_pred             HhcC-------CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC----------------------------CCCHHHH
Confidence            9865       5567888888888999999999999999988752                            2235567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-Ch
Q 044256          166 TPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ET  244 (363)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  244 (363)
                      ..+...+...|++++|+..+++..+.... +...+..++..+...|++++|...++++....             .| +.
T Consensus       376 ~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-------------~p~~~  441 (553)
T PRK12370        376 YYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH-------------LQDNP  441 (553)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-------------cccCH
Confidence            77888889999999999999998887322 22233344445666888999999998876542             24 34


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC-CCccHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN-LVADVVAYNILIHA  323 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~  323 (363)
                      ..+..+..++...|+.++|...++++.... +.+....+.+...|...|  +.|...++.+.+.. -.+....+  +-..
T Consensus       442 ~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~  516 (553)
T PRK12370        442 ILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLV  516 (553)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHH
Confidence            456667777888999999999998876542 334445566666777777  47777777766431 12222222  3334


Q ss_pred             HHccCChhHHHHHHHHHHHcC
Q 044256          324 LGKEGQIKKENYLLLSMEENG  344 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g  344 (363)
                      +.-.|+.+.+..+ +++.+.|
T Consensus       517 ~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        517 LVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HHHHhhhHHHHHH-HHhhccc
Confidence            4456776666666 7777653

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

Probab=99.59  E-value=4.5e-13  Score=112.78  Aligned_cols=256  Identities=14%  Similarity=0.037  Sum_probs=194.8

Q ss_pred             ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-ch------hhhccCChHHH
Q 044256           74 NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINA-NT------LLCKKTKLVEA  146 (363)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~------~~~~~~~~~~a  146 (363)
                      +..+|...|+.+.+.       +.-+..+...+..+|...+++++|.++|+.+.+..+-- +.      ++-...+.-+-
T Consensus       334 ~~~~A~~~~~klp~h-------~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~L  406 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-------HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVAL  406 (638)
T ss_pred             HHHHHHHHHHhhHHh-------cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHH
Confidence            568899999986654       34445667788999999999999999999998753221 11      11112221111


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                      --+-..+.... +-.+.+|.++.++|.-.++++.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+..+.
T Consensus       407 s~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~  483 (638)
T KOG1126|consen  407 SYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG  483 (638)
T ss_pred             HHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc
Confidence            11222223322 445789999999999999999999999999886  34 678888888888999999999999988764


Q ss_pred             hhHHHHHHHhHhcCCCCChHHHH---HHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHH
Q 044256          226 NGFKKIFNEMKLCNVVPETFTCN---IFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELF  302 (363)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  302 (363)
                                      .++..|+   .+.-.|.+.++++.|+-.|+++.+.+ |.+......+...+-+.|+.++|++++
T Consensus       484 ----------------~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~  546 (638)
T KOG1126|consen  484 ----------------VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLY  546 (638)
T ss_pred             ----------------CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHH
Confidence                            4555555   46678999999999999999999887 778888888999999999999999999


Q ss_pred             HHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHH-HHHH
Q 044256          303 NKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL-MISF  359 (363)
Q Consensus       303 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-l~~~  359 (363)
                      +++...+ +.|+..--..+..+...+++++|+..++++.+  +.|+..+...+ -+.|
T Consensus       547 ~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~  601 (638)
T KOG1126|consen  547 EKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIY  601 (638)
T ss_pred             HHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHH
Confidence            9999876 34565555567778889999999999999998  67776554444 3444

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

Probab=99.56  E-value=4.8e-11  Score=96.67  Aligned_cols=252  Identities=11%  Similarity=0.032  Sum_probs=195.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-ch-------hhh
Q 044256           67 TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINA-NT-------LLC  138 (363)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~-------~~~  138 (363)
                      .++-...+.+++.+-.+.....|      .+.+...-+....+.....+++.|+.+|+++.+.++-. +.       .+.
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~g------f~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv  308 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVG------FPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV  308 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc------CCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH
Confidence            34444556677777777777766      45555555555566677889999999999999874321 11       333


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                      +..+-.-  ..+..-...--+-.+.|+.++.+.|+-.++.++|...|+...+.+ +.....|..+..-|....+...|..
T Consensus       309 ~~~~skL--s~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  309 KNDKSKL--SYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HhhhHHH--HHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHH
Confidence            3322221  222211111112334688888999999999999999999999874 2256678888889999999999999


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHH
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      .++.++.-.             +.|-..|-.|.++|.-.+.+.=|+-.|++..... |.|...|.+|..+|.+.++.++|
T Consensus       386 sYRrAvdi~-------------p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eA  451 (559)
T KOG1155|consen  386 SYRRAVDIN-------------PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEA  451 (559)
T ss_pred             HHHHHHhcC-------------chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHH
Confidence            999988765             3577889999999999999999999999999876 77899999999999999999999


Q ss_pred             HHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          299 SELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+.|......| ..+...+..+...|-+.++..+|.+.|++.++
T Consensus       452 iKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  452 IKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            99999999876 34678999999999999999999999998876

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

Probab=99.56  E-value=1.3e-10  Score=102.26  Aligned_cols=254  Identities=11%  Similarity=0.047  Sum_probs=142.4

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----cch------hhhccCChHHHHHHHHHHHHcCCCCchhhHH
Q 044256           97 KPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN----ANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYT  166 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (363)
                      +-|+...+.|...|.-.|++..+..+...+......    ...      .+...|++++|...|-+..+..-.-....+.
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~  346 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLV  346 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccccc
Confidence            445666777777777777777777777776654311    111      5567788888888777776654222233445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcC----ChhHHHHHHHHHHHhhH--------------
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNF----NVEEAMNVSREMILNGF--------------  228 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~--------------  228 (363)
                      .+...+.+.|+.+.+...|+.+.... +.+..+...|...|...+    ..+.|..++.+..+..+              
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e  425 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLE  425 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHH
Confidence            56777777788888887777776651 223344444444444433    34555555554443321              


Q ss_pred             -----------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---cCcchH------HHHHHHHHH
Q 044256          229 -----------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS---NCELFV------EIFNSLIRG  288 (363)
Q Consensus       229 -----------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~li~~  288 (363)
                                 ....+.+...+..+.+...|.+...+...|++.+|...|......   ...++.      .+--.+...
T Consensus       426 ~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  426 QTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             hcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence                       223333444444566667777777777777777777777776544   112222      122234444


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCCHHHH
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN-GCALDVDTF  352 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~  352 (363)
                      +-..++++.|.+.|..+.... +--+..|..+.......+...+|...++..... .-.|+..+|
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl  569 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSL  569 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHH
Confidence            555667777777777776652 112233333332222335566666666666553 233444443

>PF13041 PPR_2: PPR repeat family

Probab=99.54  E-value=2.3e-14  Score=82.23  Aligned_cols=50  Identities=32%  Similarity=0.474  Sum_probs=44.6

Q ss_pred             ccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          312 ADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       312 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.||++|++
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            78889999999999999999999999999998999999999999998875

>PRK12370 invasion protein regulator; Provisional

Probab=99.54  E-value=3.7e-11  Score=106.41  Aligned_cols=236  Identities=12%  Similarity=0.026  Sum_probs=169.0

Q ss_pred             CCcccHHHHHHHHHh-----cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH-H------HHhcCCHHHHHHHHH
Q 044256           57 PNVTTCDTLITGLRR-----TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID-G------LCKDRLVDQTKDLFM  124 (363)
Q Consensus        57 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~-~------~~~~~~~~~a~~~~~  124 (363)
                      .+...|...+++...     .+.+++|...|++..+..+.     .+.....-..+. .      +...+++++|...++
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-----~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~  328 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-----SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAI  328 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-----cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHH
Confidence            344555555555322     23467999999999988742     233332222111 1      224567899999999


Q ss_pred             HHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHH
Q 044256          125 EMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLI  204 (363)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  204 (363)
                      +..+..                            +.+...+..+...+...|++++|...|++..+.+ +.+...+..+.
T Consensus       329 ~Al~ld----------------------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg  379 (553)
T PRK12370        329 KATELD----------------------------HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYG  379 (553)
T ss_pred             HHHhcC----------------------------CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            998752                            2346678888888899999999999999998874 33566788888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHH
Q 044256          205 NGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET-FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFN  283 (363)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  283 (363)
                      ..+...|++++|...+++..+.+              |+. ..+..++..+...|++++|...++++.....+-++..+.
T Consensus       380 ~~l~~~G~~~eAi~~~~~Al~l~--------------P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~  445 (553)
T PRK12370        380 WNLFMAGQLEEALQTINECLKLD--------------PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLS  445 (553)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--------------CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHH
Confidence            89999999999999999998765              543 233344555677899999999999987664233455677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          284 SLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       284 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .+..++...|++++|...+.++.... +.+....+.+...|+..|  ++|...++.+.+.
T Consensus       446 ~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        446 MQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            88889999999999999999986652 223445555666777777  4888888887764

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

Probab=99.54  E-value=4.1e-10  Score=95.26  Aligned_cols=313  Identities=11%  Similarity=0.020  Sum_probs=193.4

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH   82 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   82 (363)
                      .++-|..+|...++-  .|.+...|......--..|..++...+|++....- +.....|-....-+-..|+...|..++
T Consensus       531 ~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il  607 (913)
T KOG0495|consen  531 AIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVIL  607 (913)
T ss_pred             hHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHH
Confidence            355666777776664  66566777777776667777777777777777651 223334555555566677888888887


Q ss_pred             HHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHc
Q 044256           83 QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      ..+.+..       +.+..+|-+.+..-....+++.|..+|.+....+..+..      ...-.+..++|.++++..++.
T Consensus       608 ~~af~~~-------pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~  680 (913)
T KOG0495|consen  608 DQAFEAN-------PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS  680 (913)
T ss_pred             HHHHHhC-------CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh
Confidence            7777754       445677777777777777888888888777765444333      233466777777777777665


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          157 GLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                       ++.-...|-.+...+-+.++++.|...|..=.+. ++-.+..|..|...=-+.|..-.|..++++....+         
T Consensus       681 -fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN---------  749 (913)
T KOG0495|consen  681 -FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN---------  749 (913)
T ss_pred             -CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC---------
Confidence             1222445666666666777777777766554433 23344456666555556667777766665554333         


Q ss_pred             hcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch------------------------------HHHHHHHH
Q 044256          237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF------------------------------VEIFNSLI  286 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------------------------------~~~~~~li  286 (363)
                          +-+...|-..|+.-.+.|+.+.|..++.+..+. ++.+                              +.+...+.
T Consensus       750 ----Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia  824 (913)
T KOG0495|consen  750 ----PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIA  824 (913)
T ss_pred             ----CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHH
Confidence                235566777777777777777777777666543 2333                              33334444


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          287 RGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       287 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..+.....+++|.+.|.+....+ +.+..+|.-+...+.+.|.-+.-.+++..+..
T Consensus       825 ~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  825 KLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            44555555666666666665553 33445555555666666655555556655554

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

Probab=99.53  E-value=5.9e-10  Score=90.87  Aligned_cols=325  Identities=10%  Similarity=0.019  Sum_probs=195.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~   80 (363)
                      +++..|..+|++++...  ..+...|-..+.+-.++.++..|..++++....  -|-+. .|--.+.+--..|+...|.+
T Consensus        87 ~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             HHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHH
Confidence            45667777777777643  225666777777777777777777777776654  33322 23333444445566666666


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~  154 (363)
                      +|+...+        ..|+...|.+.|..-.+-+.++.|..+|+...-..+....      .-.+.|+...+..+++..+
T Consensus       163 iferW~~--------w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  163 IFERWME--------WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHHc--------CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            6666665        5566666666666666666666666666665543222111      1123444444444444433


Q ss_pred             Hc-C-----------------------------------CCCc--hhhHHHHHHHHHhcCCHHHHHHH--------HHHH
Q 044256          155 QR-G-----------------------------------LNPV--IFTYTPLLNGYCLVGKVNVAIAL--------FDSM  188 (363)
Q Consensus       155 ~~-~-----------------------------------~~~~--~~~~~~li~~~~~~~~~~~a~~~--------~~~~  188 (363)
                      +. |                                   ++.+  ...|..+...--+-|+.......        ++.+
T Consensus       235 e~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~  314 (677)
T KOG1915|consen  235 EFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKE  314 (677)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHH
Confidence            21 0                                   1111  12222222222233443332221        1222


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH--------------------------------HHHHHHhH
Q 044256          189 ARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF--------------------------------KKIFNEMK  236 (363)
Q Consensus       189 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------------------~~~~~~~~  236 (363)
                      +..+ +-|-.+|--.+..-...|+.+...+++++++.+.+                                .++++...
T Consensus       315 v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l  393 (677)
T KOG1915|consen  315 VSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL  393 (677)
T ss_pred             HHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            2221 23445566666666677888888888888765433                                33333333


Q ss_pred             hcCCCCChHHHHHHHH----HHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc
Q 044256          237 LCNVVPETFTCNIFID----GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA  312 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  312 (363)
                      + -++....||.-+--    .-.++.++..|.+++...+  |..|...+|...|..-.+.++++.+..++++.++.+ +-
T Consensus       394 ~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe  469 (677)
T KOG1915|consen  394 D-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PE  469 (677)
T ss_pred             h-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hH
Confidence            3 12223334443322    2346678888888888776  457888899999999899999999999999999886 55


Q ss_pred             cHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          313 DVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       313 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      |..+|......-...|+.+.|..+|+-.++.
T Consensus       470 ~c~~W~kyaElE~~LgdtdRaRaifelAi~q  500 (677)
T KOG1915|consen  470 NCYAWSKYAELETSLGDTDRARAIFELAISQ  500 (677)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcC
Confidence            7888888888878899999999999998874

>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=99.53  E-value=2.2e-10  Score=98.48  Aligned_cols=287  Identities=14%  Similarity=0.078  Sum_probs=206.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHH
Q 044256           30 LIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDG  109 (363)
Q Consensus        30 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~  109 (363)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..+|..++..+       +.|..-|..+..+
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-------Pdn~~Yy~~L~~~   81 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-------PDNYDYYRGLEEA   81 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------CCcHHHHHHHHHH
Confidence            345567889999999999875544 33334455677888999999999999999999975       5555556666666


Q ss_pred             HHhc-----CCHHHHHHHHHHHHHcCCCcch------hhhccCChH-HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256          110 LCKD-----RLVDQTKDLFMEMKDKGINANT------LLCKKTKLV-EANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus       110 ~~~~-----~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      ..-.     .+.+....+|+++...-+....      .+.....+. .+..++......|+|   .+|+.+-..|....+
T Consensus        82 ~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K  158 (517)
T PF12569_consen   82 LGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEK  158 (517)
T ss_pred             HhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhH
Confidence            5222     3577888899988776543222      122222333 355666777788865   367777777776666


Q ss_pred             HHHHHHHHHHHHHc----C----------CCCcHh--HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          178 VNVAIALFDSMARK----G----------FMPDVF--SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       178 ~~~a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                      .+-...++......    +          -+|+..  ++..+...|...|++++|+.++++.+...              
T Consensus       159 ~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--------------  224 (517)
T PF12569_consen  159 AAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--------------  224 (517)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--------------
Confidence            66666666665432    1          134443  44556778889999999999999888764              


Q ss_pred             CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH-----
Q 044256          242 PE-TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVV-----  315 (363)
Q Consensus       242 ~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----  315 (363)
                      |+ +..|..-...+-..|++.+|.+.++...... .-|..+-+-.+..+.++|++++|.+++....+.+..|-..     
T Consensus       225 Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQ  303 (517)
T PF12569_consen  225 PTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQ  303 (517)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHH
Confidence            55 6678888899999999999999999999887 6678888888899999999999999999988765433221     


Q ss_pred             -HH--HHHHHHHHccCChhHHHHHHHHHHH
Q 044256          316 -AY--NILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       316 -~~--~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                       .|  .....+|.+.|++..|++-|....+
T Consensus       304 c~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  304 CMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             22  2335688999999999887776654

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 [], [].

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

Probab=99.53  E-value=2.3e-10  Score=99.96  Aligned_cols=318  Identities=12%  Similarity=0.015  Sum_probs=233.0

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |+.+.+...+-.+..  ..|.|...|..+.....+.|++++|.-.|.+.++.. +++...+---...|-+.|+...|...
T Consensus       187 Gd~eK~l~~~llAAH--L~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~  263 (895)
T KOG2076|consen  187 GDIEKALNFWLLAAH--LNPKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMET  263 (895)
T ss_pred             ccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHH
Confidence            677777776655554  478789999999999999999999999999999885 45555555667889999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhh----HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFC----YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANR  148 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~  148 (363)
                      |.++.+..      .+.|..-    --..++.+...++-+.|.+.++.....+.....         .+.....++.+..
T Consensus       264 f~~l~~~~------p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~  337 (895)
T KOG2076|consen  264 FLQLLQLD------PPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALM  337 (895)
T ss_pred             HHHHHhhC------CchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhH
Confidence            99999865      1222222    233456677778889999999888773221111         6677888888888


Q ss_pred             HHHHHHHcCC---------------------------CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCcHhH
Q 044256          149 LLELMMQRGL---------------------------NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF--MPDVFS  199 (363)
Q Consensus       149 ~~~~~~~~~~---------------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~  199 (363)
                      .+........                           .++..+ --+.-++.+....+....+...+.+..+  .-+...
T Consensus       338 ~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL  416 (895)
T KOG2076|consen  338 KIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDL  416 (895)
T ss_pred             HHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHH
Confidence            7776665211                           222222 1223344455556666666666666653  335667


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV  279 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  279 (363)
                      |.-+..+|.+.|++.+|+.++..+....            ...+...|-.+..+|...|..++|.+.|++++... |.+.
T Consensus       417 ~~d~a~al~~~~~~~~Al~~l~~i~~~~------------~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~  483 (895)
T KOG2076|consen  417 YLDLADALTNIGKYKEALRLLSPITNRE------------GYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNL  483 (895)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHhcCc------------cccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCch
Confidence            8889999999999999998888776543            22346688889999999999999999999999875 6677


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhh--------CCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSC--------KNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..-..|-..+-+.|+.++|.+++..+..        .+..|+....-.....+.+.|+.++-+.+-..|+.
T Consensus       484 D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  484 DARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             hhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            7788888999999999999999999642        23455666666667778888998886666655554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.52  E-value=3.8e-11  Score=94.86  Aligned_cols=203  Identities=11%  Similarity=-0.018  Sum_probs=163.9

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      .....+..+...+...|++++|...+++..+..                            +.+...+..+...+...|+
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~----------------------------p~~~~~~~~la~~~~~~~~   80 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD----------------------------PDDYLAYLALALYYQQLGE   80 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC----------------------------cccHHHHHHHHHHHHHcCC
Confidence            345678888889999999999999998887541                            2345677888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      ++.|.+.++...+.. +.+...+..+...+...|++++|...+++.....           ........+..+..++...
T Consensus        81 ~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~  148 (234)
T TIGR02521        81 LEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDP-----------LYPQPARSLENAGLCALKA  148 (234)
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc-----------ccccchHHHHHHHHHHHHc
Confidence            999999999988764 3356677788888999999999998888776431           1112344666778888999


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHH
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLL  337 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  337 (363)
                      |++++|...+.+..... +.+...+..+...+...|++++|...+++.... .+.+...+..+...+...|+.++|..+.
T Consensus       149 g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~  226 (234)
T TIGR02521       149 GDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYG  226 (234)
T ss_pred             CCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999999998765 556778889999999999999999999999876 3556777778888888999999999998


Q ss_pred             HHHHH
Q 044256          338 LSMEE  342 (363)
Q Consensus       338 ~~m~~  342 (363)
                      +.+..
T Consensus       227 ~~~~~  231 (234)
T TIGR02521       227 AQLQK  231 (234)
T ss_pred             HHHHh
Confidence            88765

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.51  E-value=1.9e-11  Score=103.69  Aligned_cols=261  Identities=16%  Similarity=0.094  Sum_probs=188.1

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----C-CCCCccc-HHHHHHHHHhcCChhHHHHHHHHHHhccCC-
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF-----G-CRPNVTT-CDTLITGLRRTGNMNLTLKLHQEMVNGMGD-   91 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-   91 (363)
                      .|.-..+...+...|...|+++.|..+++...+.     | ..|...+ .+.+...|...+++++|..+|+++...... 
T Consensus       195 ~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~  274 (508)
T KOG1840|consen  195 DPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEV  274 (508)
T ss_pred             CchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence            3434556777999999999999999999987764     2 1233333 344777889999999999999998865422 


Q ss_pred             CCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCc-hhhHHHHHH
Q 044256           92 FGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPV-IFTYTPLLN  170 (363)
Q Consensus        92 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~  170 (363)
                      ++...+.-..+++.|..+|.+.|++++|...++...+                    ++++.... ..|. ...++.+..
T Consensus       275 ~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~--------------------I~~~~~~~-~~~~v~~~l~~~~~  333 (508)
T KOG1840|consen  275 FGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALE--------------------IYEKLLGA-SHPEVAAQLSELAA  333 (508)
T ss_pred             cCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH--------------------HHHHhhcc-ChHHHHHHHHHHHH
Confidence            2233344567888999999999999999999988664                    23331111 1222 234666778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc---CCCC----cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          171 GYCLVGKVNVAIALFDSMARK---GFMP----DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      .|...++++.|..+++...+.   -+.+    -..+++.|...|...|++++|.+++++++..     .++.......-.
T Consensus       334 ~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~-----~~~~~~~~~~~~  408 (508)
T KOG1840|consen  334 ILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI-----LRELLGKKDYGV  408 (508)
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH-----HHhcccCcChhh
Confidence            888999999999999866543   1222    2357889999999999999999999988643     222222222333


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----c--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEIS----N--CELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      ...++.+...|.+.+++.+|.++|.+....    |  .+-...+|..|...|.+.|+++.|.++.+.+.
T Consensus       409 ~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  409 GKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            556788889999999999999988876432    2  23345688899999999999999999888776

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

Probab=99.51  E-value=7.1e-10  Score=93.89  Aligned_cols=292  Identities=10%  Similarity=-0.010  Sum_probs=217.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |..++-..+|.++...  .|.....|-.....+...|+...|..++....+.. +.+...|...+..-.....++.|..+
T Consensus       564 gt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~l  640 (913)
T KOG0495|consen  564 GTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDL  640 (913)
T ss_pred             CcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHH
Confidence            5566777788888876  56467778888888888899999999998888774 34667888888888888899999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH---cC-
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ---RG-  157 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~-  157 (363)
                      |.+...        ..|+..+|---+..---.+..++|.+++++.++.-..-...+...|+..+-..-++....   .| 
T Consensus       641 lakar~--------~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~  712 (913)
T KOG0495|consen  641 LAKARS--------ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGT  712 (913)
T ss_pred             HHHHhc--------cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcc
Confidence            988887        457777777766666677888999999988887655444444444444443333333221   12 


Q ss_pred             --CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH-------
Q 044256          158 --LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF-------  228 (363)
Q Consensus       158 --~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------  228 (363)
                        ++-.+..|-.|...--+.|++-.|..+++...-.+ +-+...|-..|+.-.+.|..+.|..++.+.++.-+       
T Consensus       713 k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWa  791 (913)
T KOG0495|consen  713 KKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWA  791 (913)
T ss_pred             ccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHH
Confidence              33445567777777777888889999998877764 33777888888888899999999888877765533       


Q ss_pred             ------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChH
Q 044256          229 ------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFE  296 (363)
Q Consensus       229 ------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  296 (363)
                                  ....+.+++  ...|+++...+...+-...++++|.+.|.+.++.+ +-+..+|.-+...+.++|.-+
T Consensus       792 EaI~le~~~~rkTks~DALkk--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~ee  868 (913)
T KOG0495|consen  792 EAIWLEPRPQRKTKSIDALKK--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEE  868 (913)
T ss_pred             HHHHhccCcccchHHHHHHHh--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHH
Confidence                        112233333  23566677777778888889999999999999876 666789999999999999999


Q ss_pred             HHHHHHHHhhhC
Q 044256          297 IASELFNKLSCK  308 (363)
Q Consensus       297 ~a~~~~~~~~~~  308 (363)
                      .-.+++......
T Consensus       869 d~kev~~~c~~~  880 (913)
T KOG0495|consen  869 DQKEVLKKCETA  880 (913)
T ss_pred             HHHHHHHHHhcc
Confidence            999999888766

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.51  E-value=2.6e-11  Score=95.84  Aligned_cols=192  Identities=14%  Similarity=0.064  Sum_probs=157.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+..       +.+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------~~~~~~  101 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-------PNNGDV  101 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-------CCCHHH
Confidence            46778889999999999999999999988763 3446677888899999999999999999998864       456678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYC  173 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (363)
                      +..+...+...|++++|...+++..+....+..         .+...|++++|...+.+..+.. +.+...+..+...+.
T Consensus       102 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  180 (234)
T TIGR02521       102 LNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYY  180 (234)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHH
Confidence            888899999999999999999999875332221         5678899999999999988764 334667888899999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          174 LVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                      ..|++++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       181 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       181 LRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            999999999999998876 34466677777888888999999987766654

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

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

Probab=99.50  E-value=8.2e-12  Score=108.57  Aligned_cols=83  Identities=16%  Similarity=0.177  Sum_probs=66.2

Q ss_pred             cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      .|++.+|.+++.+-..+|+.+.|..++.+|.+.|++.+..-|..++.+   .++...+..+++.|.+.|+.|+..|+.-.
T Consensus       201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ady  277 (1088)
T KOG4318|consen  201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADY  277 (1088)
T ss_pred             CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHH
Confidence            577888888888888888888888888888888888888877777765   67777788888888888888888888776


Q ss_pred             HHHHhh
Q 044256          356 MISFLQ  361 (363)
Q Consensus       356 l~~~~~  361 (363)
                      +-.+..
T Consensus       278 vip~l~  283 (1088)
T KOG4318|consen  278 VIPQLS  283 (1088)
T ss_pred             HHhhhc
Confidence            665544

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

Probab=99.49  E-value=7.2e-10  Score=88.41  Aligned_cols=272  Identities=12%  Similarity=0.036  Sum_probs=181.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH
Q 044256           37 EGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV  116 (363)
Q Consensus        37 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  116 (363)
                      .|+|.+|.+...+-.+.+-. ....|..-..+.-..|+.+.+-.++.+.-+..      -.++....-+..+.....|++
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~------~~~~l~v~ltrarlll~~~d~  169 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELA------GDDTLAVELTRARLLLNRRDY  169 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccC------CCchHHHHHHHHHHHHhCCCc
Confidence            35555555555554444311 12223333444445555555555555555432      133344444444455555555


Q ss_pred             HHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Q 044256          117 DQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD  196 (363)
Q Consensus       117 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  196 (363)
                      +.|..-++++.+                           .+ +-+.........+|.+.|++.....++..+.+.|.-.+
T Consensus       170 ~aA~~~v~~ll~---------------------------~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~  221 (400)
T COG3071         170 PAARENVDQLLE---------------------------MT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSD  221 (400)
T ss_pred             hhHHHHHHHHHH---------------------------hC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCCh
Confidence            555555555444                           33 34567888899999999999999999999999876544


Q ss_pred             H-------hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          197 V-------FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPT  269 (363)
Q Consensus       197 ~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  269 (363)
                      .       .+|..+++-....+..+.-...++.....             .+.++..-.+++.-+...|+.++|.++.++
T Consensus       222 ~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-------------lr~~p~l~~~~a~~li~l~~~~~A~~~i~~  288 (400)
T COG3071         222 EEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-------------LRNDPELVVAYAERLIRLGDHDEAQEIIED  288 (400)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-------------hhcChhHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3       35666666555555555544444443322             234566777888889999999999999999


Q ss_pred             HHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          270 LEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       270 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      ..+.+..|+    -...-.+.+-++.+.-.+..+.-.... +-++..+.++...|.+.+.|.+|...|+..++  .+|+.
T Consensus       289 ~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~  361 (400)
T COG3071         289 ALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSA  361 (400)
T ss_pred             HHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCCh
Confidence            998876665    222334567788888888777766552 44668899999999999999999999998877  78999


Q ss_pred             HHHHHHHHHHhhcC
Q 044256          350 DTFNTLMISFLQKE  363 (363)
Q Consensus       350 ~~~~~ll~~~~~~~  363 (363)
                      .+|..+-.+|.+.|
T Consensus       362 ~~~~~la~~~~~~g  375 (400)
T COG3071         362 SDYAELADALDQLG  375 (400)
T ss_pred             hhHHHHHHHHHHcC
Confidence            99999999887654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.48  E-value=2e-10  Score=97.57  Aligned_cols=275  Identities=16%  Similarity=0.053  Sum_probs=193.0

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhh
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVF-CYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      .+...+...|...|+++.|..+++...+.-........|... ..+.+...|...+++.+|..+|+++...         
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i---------  270 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTI---------  270 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH---------
Confidence            466678899999999999999999887751111111234433 3444778888999999999999887642         


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCcHh-HHHHHHHHHHhcC
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK-----GF-MPDVF-SYSVLINGYCKNF  211 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~l~~~~~~~~  211 (363)
                                 ++.......+.-..+++.|..+|.+.|++++|...++...+-     |. .|... .++.+...+...+
T Consensus       271 -----------~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~  339 (508)
T KOG1840|consen  271 -----------REEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMN  339 (508)
T ss_pred             -----------HHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhc
Confidence                       333333333334677888889999999999998888765432     21 22322 3556677788899


Q ss_pred             ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-------CcchHHHHHH
Q 044256          212 NVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN-------CELFVEIFNS  284 (363)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~  284 (363)
                      ++++|..+++...+     ++..........-..+++.|...|...|++++|.+++++++...       ..-....++.
T Consensus       340 ~~Eea~~l~q~al~-----i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~  414 (508)
T KOG1840|consen  340 EYEEAKKLLQKALK-----IYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQ  414 (508)
T ss_pred             chhHHHHHHHHHHH-----HHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHH
Confidence            99999999987653     22222221112234679999999999999999999999987542       1223456788


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhC----C--CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc------CCCCCHHHH
Q 044256          285 LIRGCCKFGIFEIASELFNKLSCK----N--LVADVVAYNILIHALGKEGQIKKENYLLLSMEEN------GCALDVDTF  352 (363)
Q Consensus       285 li~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~~~~~  352 (363)
                      |...|.+.+++.+|.++|.+....    |  -+-...+|..|...|.+.|+++.|.++.+.....      ...|+....
T Consensus       415 la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~  494 (508)
T KOG1840|consen  415 LAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDE  494 (508)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHH
Confidence            899999999999999998876532    2  1223568899999999999999999998887632      345666555


Q ss_pred             HHHHHHH
Q 044256          353 NTLMISF  359 (363)
Q Consensus       353 ~~ll~~~  359 (363)
                      ......+
T Consensus       495 ~~~~~~~  501 (508)
T KOG1840|consen  495 KLRLADL  501 (508)
T ss_pred             HHhhhHH
Confidence            5554443

>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=6.2e-10  Score=92.56  Aligned_cols=283  Identities=11%  Similarity=0.025  Sum_probs=134.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ++.....-.+-+-..+++++..++++...+.. ++....+..-|.++...|+..+-..+=.++...       .|..+.+
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-------yP~~a~s  314 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-------YPSKALS  314 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-------CCCCCcc
Confidence            33344444444555666666666666666543 445555555555666666666666665666654       2445666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      |-++.-.|...|...+|.+.|.+....+..-                            ...|-.+...|+-.|..|+|.
T Consensus       315 W~aVg~YYl~i~k~seARry~SKat~lD~~f----------------------------gpaWl~fghsfa~e~EhdQAm  366 (611)
T KOG1173|consen  315 WFAVGCYYLMIGKYSEARRYFSKATTLDPTF----------------------------GPAWLAFGHSFAGEGEHDQAM  366 (611)
T ss_pred             hhhHHHHHHHhcCcHHHHHHHHHHhhcCccc----------------------------cHHHHHHhHHhhhcchHHHHH
Confidence            6666666666666666666666654432221                            224444444455555555555


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      ..+...-+. ++-....+--+.--|.+.+...-|...|.......             +.|+...+-+.-.....+.+.+
T Consensus       367 aaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-------------P~Dplv~~Elgvvay~~~~y~~  432 (611)
T KOG1173|consen  367 AAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-------------PSDPLVLHELGVVAYTYEEYPE  432 (611)
T ss_pred             HHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-------------CCcchhhhhhhheeehHhhhHH
Confidence            444433322 00011111112222444444444444444433221             1233333333333333444455


Q ss_pred             HHHHHHHHHhc------cCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          263 VMELFPTLEIS------NCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       263 a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      |..+|+.....      ..+....+++.|..+|.+.+.+++|+..+++.+... +.+..++.++.-.|...|+++.|...
T Consensus       433 A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~  511 (611)
T KOG1173|consen  433 ALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDH  511 (611)
T ss_pred             HHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHH
Confidence            55544444311      001122334445555555555555555555544442 33444555555555555555555555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHH
Q 044256          337 LLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       337 ~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      |.+.+.  +.|+..+...++..
T Consensus       512 fhKaL~--l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  512 FHKALA--LKPDNIFISELLKL  531 (611)
T ss_pred             HHHHHh--cCCccHHHHHHHHH
Confidence            555443  44554444444443

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

Probab=99.47  E-value=9.7e-12  Score=96.29  Aligned_cols=229  Identities=14%  Similarity=0.015  Sum_probs=137.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCC
Q 044256           63 DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTK  142 (363)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  142 (363)
                      +.+..+|.+.|.+.+|.+.++...+        ..|-+.||-.|-..|.+..++..|+.++.+-.+.             
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~--------q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-------------  285 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLT--------QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-------------  285 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhh--------cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-------------
Confidence            5566777777777777777777666        3456667777777777777777777777766653             


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                                     ++-++.....+.+.+-..++.++|.++|+...+.. +.++.....+...|.-.++++.|+..+++
T Consensus       286 ---------------fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRR  349 (478)
T KOG1129|consen  286 ---------------FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRR  349 (478)
T ss_pred             ---------------CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHH
Confidence                           12233333444555555666666666666655542 22344444444555556666666666666


Q ss_pred             HHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch--HHHHHHHHHHHHhcCChHHHHH
Q 044256          223 MILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF--VEIFNSLIRGCCKFGIFEIASE  300 (363)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~  300 (363)
                      +++-|.             .++..|+.+.-+|...++++-++.-|.+....--.|+  ..+|-.|.......||+..|.+
T Consensus       350 iLqmG~-------------~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~r  416 (478)
T KOG1129|consen  350 ILQMGA-------------QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKR  416 (478)
T ss_pred             HHHhcC-------------CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHH
Confidence            655542             4555666666666666666666666665544322222  3455555555666666666666


Q ss_pred             HHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          301 LFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .|+-....+ ..+...++.|...-.+.|++++|..++.....
T Consensus       417 cfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  417 CFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            666666554 33556666666666666666666666666655

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

Probab=99.47  E-value=4.2e-12  Score=110.31  Aligned_cols=270  Identities=13%  Similarity=0.113  Sum_probs=150.8

Q ss_pred             HHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 044256            9 MAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNG   88 (363)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   88 (363)
                      ..+..+...|+.| +..+|..+|.-|+..|+.+.|- +|.-|.....+.+...|+.++......++.+.+.         
T Consensus        11 nfla~~e~~gi~P-nRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILP-NRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCC-chhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            4567788899999 9999999999999999999999 9999988877778888999998888888766554         


Q ss_pred             cCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHH-HHHcCCCcchhhhccCChHHHHHHHHHHH-HcCCCCchhhHH
Q 044256           89 MGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFME-MKDKGINANTLLCKKTKLVEANRLLELMM-QRGLNPVIFTYT  166 (363)
Q Consensus        89 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~  166 (363)
                              .|.+.+|..|..+|...||+.. ++..++ +.....    .+...|.-.....++..+. ..+.-||..   
T Consensus        80 --------ep~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~----sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---  143 (1088)
T KOG4318|consen   80 --------EPLADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQ----SFSDHGVGSPERWFLMKIHCCPHSLPDAE---  143 (1088)
T ss_pred             --------CCchhHHHHHHHHHHhccchHH-HHHHHHHHHHHHh----hhhhhccCcHHHHHHhhcccCcccchhHH---
Confidence                    5778899999999999999866 333333 222110    1122222222222222211 111222221   


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcHhHHHHHHHHHHhcC-ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARKGF-MPDVFSYSVLINGYCKNF-NVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      ..+....-.|-++.+.+++..+..... .|...    +++-+.... .+++-....+...               -.|++
T Consensus       144 n~illlv~eglwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~---------------e~~~s  204 (1088)
T KOG4318|consen  144 NAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLV---------------EAPTS  204 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhh---------------cCCCh
Confidence            122223333444444444433322110 01111    122222111 1111111111110               02555


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+|.+++.+-...|+.+.|..++.+|.+.|++.+..-|..|+-+   .++...+..++.-|...|+.|+..|+...+..+
T Consensus       205 ~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~  281 (1088)
T KOG4318|consen  205 ETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQ  281 (1088)
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhh
Confidence            66666666655666666666666666666665555555555444   555555555666666666666666655555555


Q ss_pred             Hcc
Q 044256          325 GKE  327 (363)
Q Consensus       325 ~~~  327 (363)
                      ..+
T Consensus       282 l~N  284 (1088)
T KOG4318|consen  282 LSN  284 (1088)
T ss_pred             hcc
Confidence            443

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=2.2e-13  Score=78.17  Aligned_cols=50  Identities=46%  Similarity=1.026  Sum_probs=48.5

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK  209 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  209 (363)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            78999999999999999999999999999999999999999999999875

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

Probab=99.45  E-value=3.9e-10  Score=91.54  Aligned_cols=272  Identities=14%  Similarity=0.103  Sum_probs=199.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHH--HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHH
Q 044256           33 GFCMEGNIRDASQLVKKMATFGCRPNVTTCDTL--ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGL  110 (363)
Q Consensus        33 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  110 (363)
                      -+.++|+++.|++++.-+.+..-+.-...-+.|  +..+-...++..|.+.-+.....+       +-+......-....
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-------ryn~~a~~nkgn~~  500 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-------RYNAAALTNKGNIA  500 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-------ccCHHHhhcCCcee
Confidence            477899999999999888765322111122222  222222347788888777776644       33333333333444


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          111 CKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       111 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      ...|++++|.+.|++.+..+..-..       .+...|+.++|++.|-++... +..+..+...+.+.|-...+...|++
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            5679999999999998876433222       456788999999988776543 12356677788889999999999999


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHH
Q 044256          184 LFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEV  263 (363)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  263 (363)
                      ++.+.... ++.|+...+.|...|-+.|+-.+|++.+-.-.+             -++.+..+...|...|....-++++
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-------------yfp~nie~iewl~ayyidtqf~eka  645 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-------------YFPCNIETIEWLAAYYIDTQFSEKA  645 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-------------ccCcchHHHHHHHHHHHhhHHHHHH
Confidence            99877654 666889999999999999999999876433221             2345778888899999999999999


Q ss_pred             HHHHHHHHhccCcchHHHHHHHHHHH-HhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCC
Q 044256          264 MELFPTLEISNCELFVEIFNSLIRGC-CKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQ  329 (363)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  329 (363)
                      +.+|++..-  +.|+..-|..++..| .+.|++.+|..++....+. ++-|......|++.+...|.
T Consensus       646 i~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  646 INYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            999998765  489999998887665 4779999999999998876 67789999999998887764

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

Probab=99.44  E-value=4.4e-11  Score=92.75  Aligned_cols=213  Identities=9%  Similarity=-0.007  Sum_probs=154.0

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      |-.--+.+..+|.+.|.+.+|.+.++.-.+.                             .|-+.||..|-..|.+..++
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q-----------------------------~~~~dTfllLskvY~ridQP  272 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ-----------------------------FPHPDTFLLLSKVYQRIDQP  272 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc-----------------------------CCchhHHHHHHHHHHHhccH
Confidence            3334456778888888888888888877664                             44556788888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG  258 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  258 (363)
                      ..|+.++.+-.+. ++.|+....-+.+.+...++.++|.++++...+.+             +.+......+...|...+
T Consensus       273 ~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-------------~~nvEaiAcia~~yfY~~  338 (478)
T KOG1129|consen  273 ERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-------------PINVEAIACIAVGYFYDN  338 (478)
T ss_pred             HHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-------------CccceeeeeeeeccccCC
Confidence            8888888887765 23333333446667777888888888888887764             345556666677778888


Q ss_pred             CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc--HHHHHHHHHHHHccCChhHHHHH
Q 044256          259 HVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD--VVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       259 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      +++.|+.+|+++...| .-++..|+.+.-+|.-.++++-++.-|++....--.|+  ...|..+-......||+.-|.+.
T Consensus       339 ~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rc  417 (478)
T KOG1129|consen  339 NPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRC  417 (478)
T ss_pred             ChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHH
Confidence            8888888888888888 44678888888888888888888888888776532333  45677777777888888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHH
Q 044256          337 LLSMEENGCALDVDTFNTLM  356 (363)
Q Consensus       337 ~~~m~~~g~~p~~~~~~~ll  356 (363)
                      |+-.+..+ .-+...++-|-
T Consensus       418 frlaL~~d-~~h~ealnNLa  436 (478)
T KOG1129|consen  418 FRLALTSD-AQHGEALNNLA  436 (478)
T ss_pred             HHHHhccC-cchHHHHHhHH
Confidence            88877653 22334444443

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

Probab=99.43  E-value=3.6e-09  Score=89.53  Aligned_cols=329  Identities=11%  Similarity=0.045  Sum_probs=200.2

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |+.++|........+.  .+.+...|+.+.-.+....++++|+..|......+ +.|...|..+.-.-++.++++.....
T Consensus        55 g~~~ea~~~vr~glr~--d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   55 GKKEEAYELVRLGLRN--DLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             cchHHHHHHHHHHhcc--CcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHH
Confidence            5667777777777765  44477788888888888888888888888888764 44556676666666677777777777


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-Ccch--------------hhhccCChHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI-NANT--------------LLCKKTKLVEA  146 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--------------~~~~~~~~~~a  146 (363)
                      -....+..       +.....|..+..++.-.|+...|..++++..+... .|+.              ...+.|.+++|
T Consensus       132 r~~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  132 RNQLLQLR-------PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKA  204 (700)
T ss_pred             HHHHHHhh-------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHH
Confidence            77777643       44466788888888888999999999998877653 2222              44566666666


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH-hcCChhHHH-HHHHHHH
Q 044256          147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYC-KNFNVEEAM-NVSREMI  224 (363)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~-~~~~~~~  224 (363)
                      .+.+......- ......-..-...+.+.+++++|..++..+...  .||..-|...+..+. +..+.-+++ .+|....
T Consensus       205 le~L~~~e~~i-~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls  281 (700)
T KOG1156|consen  205 LEHLLDNEKQI-VDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILS  281 (700)
T ss_pred             HHHHHhhhhHH-HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            66655443221 111112233345566777777777777777766  455555544333222 222222222 2333221


Q ss_pred             HhhH-----------------------------------------HH---------HHHHh--------HhcC-------
Q 044256          225 LNGF-----------------------------------------KK---------IFNEM--------KLCN-------  239 (363)
Q Consensus       225 ~~~~-----------------------------------------~~---------~~~~~--------~~~~-------  239 (363)
                      +.-.                                         ..         +++.+        ...|       
T Consensus       282 ~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~  361 (700)
T KOG1156|consen  282 EKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDD  361 (700)
T ss_pred             hcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccc
Confidence            1111                                         00         11111        1110       


Q ss_pred             ---CCCChHHHH--HHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH
Q 044256          240 ---VVPETFTCN--IFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV  314 (363)
Q Consensus       240 ---~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  314 (363)
                         -+|++..|.  .++..+-+.|+++.|...++..+.+- |.-+..|..=.+.+...|++++|..++++..+.+ .+|.
T Consensus       362 ~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHT-PTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR  439 (700)
T KOG1156|consen  362 GKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHT-PTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADR  439 (700)
T ss_pred             cccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC-chHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhH
Confidence               134444333  34566677788888888888777652 3334556666677778888888888888887765 3344


Q ss_pred             HHHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 044256          315 VAYNILIHALGKEGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       315 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  345 (363)
                      ..=.--..-..++++.++|.++.-.....|.
T Consensus       440 ~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  440 AINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            4333444455667777888777777776654

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

Probab=99.43  E-value=1.1e-09  Score=91.12  Aligned_cols=276  Identities=11%  Similarity=-0.029  Sum_probs=216.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      +++.+..++++.+.+.  .|.+...+..-|.++...|+..+-..+=.++.+.- +-...+|-++..-|.-.|+..+|.+.
T Consensus       258 c~f~~c~kit~~lle~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry  334 (611)
T KOG1173|consen  258 CRFKECLKITEELLEK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRY  334 (611)
T ss_pred             ChHHHHHHHhHHHHhh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHH
Confidence            5678888999999886  77788899999999999999999998888888873 44567999999999999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCc
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPV  161 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (363)
                      |.+....++       .=...|-.....|+-.|..+.|+..|....+.-.                        ....| 
T Consensus       335 ~SKat~lD~-------~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~------------------------G~hlP-  382 (611)
T KOG1173|consen  335 FSKATTLDP-------TFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMP------------------------GCHLP-  382 (611)
T ss_pred             HHHHhhcCc-------cccHHHHHHhHHhhhcchHHHHHHHHHHHHHhcc------------------------CCcch-
Confidence            999987542       2256799999999999999999999887765310                        00112 


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                         +--+.--|.+.++.+.|.+.|.+.... .+.|+...+-+.-.....+.+.+|...|+..+..     .+......+ 
T Consensus       383 ---~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~-----ik~~~~e~~-  452 (611)
T KOG1173|consen  383 ---SLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEV-----IKSVLNEKI-  452 (611)
T ss_pred             ---HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHH-----hhhcccccc-
Confidence               222344577789999999999988776 2447777887777777789999999998876521     111111111 


Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      -...+++.|..+|.+.+.+++|+..+++..... +.+..++.++.-.|...|+++.|...|.+....  .|+..+...++
T Consensus       453 ~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~l--~p~n~~~~~lL  529 (611)
T KOG1173|consen  453 FWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALAL--KPDNIFISELL  529 (611)
T ss_pred             chhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc--CCccHHHHHHH
Confidence            234578889999999999999999999998875 788999999999999999999999999998875  67777767666


Q ss_pred             HHHH
Q 044256          322 HALG  325 (363)
Q Consensus       322 ~~~~  325 (363)
                      ..+.
T Consensus       530 ~~ai  533 (611)
T KOG1173|consen  530 KLAI  533 (611)
T ss_pred             HHHH
Confidence            6443

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

Probab=99.42  E-value=8.2e-09  Score=86.54  Aligned_cols=343  Identities=11%  Similarity=0.051  Sum_probs=202.0

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|.+....++..+  |.+..++..=+-++.+.+++++|+.+.+.-...  ..+..-+-.-..+..+.+..++|+.
T Consensus        25 ~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk  100 (652)
T KOG2376|consen   25 NGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALK  100 (652)
T ss_pred             chHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHH
Confidence            478999999999999874  657888888888899999999999655442211  1111111122344557889999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------------------------
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------------------------  135 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------------------  135 (363)
                      .++-..          +.+..+...-...+.+.|++++|+++|+.+.+.+.....                         
T Consensus       101 ~~~~~~----------~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v  170 (652)
T KOG2376|consen  101 TLKGLD----------RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEV  170 (652)
T ss_pred             HHhccc----------ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCC
Confidence            888221          233446666677788999999999999998765433221                         


Q ss_pred             -------------hhhccCChHHHHHHHHHHHHcC--------CC-----Cch-hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          136 -------------LLCKKTKLVEANRLLELMMQRG--------LN-----PVI-FTYTPLLNGYCLVGKVNVAIALFDSM  188 (363)
Q Consensus       136 -------------~~~~~~~~~~a~~~~~~~~~~~--------~~-----~~~-~~~~~li~~~~~~~~~~~a~~~~~~~  188 (363)
                                   .+...|++.+|+++++.....+        ..     ... ..-..|.-.+-..|+.++|..++...
T Consensus       171 ~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  171 PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence                         4456788888888887773211        00     000 01122334455678888888888777


Q ss_pred             HHcCCCCcHh----HHHHHHHHHHhcCChh-HHHHHHHH------------HHHhhH-----------------------
Q 044256          189 ARKGFMPDVF----SYSVLINGYCKNFNVE-EAMNVSRE------------MILNGF-----------------------  228 (363)
Q Consensus       189 ~~~~~~~~~~----~~~~l~~~~~~~~~~~-~a~~~~~~------------~~~~~~-----------------------  228 (363)
                      ..... +|..    .-|.|+..-....-++ .++..++.            +.....                       
T Consensus       251 i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~  329 (652)
T KOG2376|consen  251 IKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVREL  329 (652)
T ss_pred             HHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            76642 2221    1112221110000001 00000000            000000                       


Q ss_pred             -------------------------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHH--------H
Q 044256          229 -------------------------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFP--------T  269 (363)
Q Consensus       229 -------------------------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~--------~  269 (363)
                                                     ..++...-+....-...+.-.+++.....|+++.|.+++.        .
T Consensus       330 ~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss  409 (652)
T KOG2376|consen  330 SASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSS  409 (652)
T ss_pred             HHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhh
Confidence                                           0111111111111123344455667778899999998888        4


Q ss_pred             HHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC--CCCcc----HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          270 LEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK--NLVAD----VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       270 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +.+.+..  +.+...++..+.+.++.+.|..++.+....  .-.+.    ..++.-+...-.+.|+-++|.++++++.+.
T Consensus       410 ~~~~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~  487 (652)
T KOG2376|consen  410 ILEAKHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF  487 (652)
T ss_pred             hhhhccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh
Confidence            4444433  345566777777777777777777666532  00112    223333444445789999999999999985


Q ss_pred             CCCCCHHHHHHHHHHHhh
Q 044256          344 GCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       344 g~~p~~~~~~~ll~~~~~  361 (363)
                       -++|..+...++.+|++
T Consensus       488 -n~~d~~~l~~lV~a~~~  504 (652)
T KOG2376|consen  488 -NPNDTDLLVQLVTAYAR  504 (652)
T ss_pred             -CCchHHHHHHHHHHHHh
Confidence             47889999999999986

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

Probab=99.41  E-value=1.5e-09  Score=88.84  Aligned_cols=291  Identities=10%  Similarity=-0.044  Sum_probs=203.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc-hhhH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN-VFCY  103 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~  103 (363)
                      .+....+-|.++|++++|++.|.+.+..  .|| +.-|.....+|...|+|+++.+.-....+        +.|+ +-.+
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALE--------l~P~Y~KAl  186 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALE--------LNPDYVKAL  186 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh--------cCcHHHHHH
Confidence            4555667788999999999999999986  688 66678888899999999999998888877        3454 4455


Q ss_pred             HHHHHHHHhcCCHHHHHH----------------------HHHHH---------HHcC--CCcch----hh---------
Q 044256          104 GSLIDGLCKDRLVDQTKD----------------------LFMEM---------KDKG--INANT----LL---------  137 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~----------------------~~~~~---------~~~~--~~~~~----~~---------  137 (363)
                      ..-.+++-..|++++|+.                      ++.+.         .+.+  +.|+.    .|         
T Consensus       187 ~RRA~A~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~  266 (606)
T KOG0547|consen  187 LRRASAHEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPK  266 (606)
T ss_pred             HHHHHHHHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccc
Confidence            555566666666665532                      22111         1001  11222    00         


Q ss_pred             --------------------hc---cCChHHHHHHHHHHHHc-CCCCchh-----------hHHHHHHHHHhcCCHHHHH
Q 044256          138 --------------------CK---KTKLVEANRLLELMMQR-GLNPVIF-----------TYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       138 --------------------~~---~~~~~~a~~~~~~~~~~-~~~~~~~-----------~~~~li~~~~~~~~~~~a~  182 (363)
                                          ..   ...+.+|...+.+-... ...++..           +...-...+.-.|+.-.|.
T Consensus       267 ~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~  346 (606)
T KOG0547|consen  267 PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQ  346 (606)
T ss_pred             ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhh
Confidence                                00   01222222222221110 0111111           1111111223468888899


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      .-|+..+.....++ ..|..+..+|....+.++....|.+....+             +.++.+|..-.+...-.+++++
T Consensus       347 ~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-------------p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  347 EDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-------------PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-------------CCCCchhHhHHHHHHHHHHHHH
Confidence            99998888743332 227777778999999999999888887665             3466788888888888899999


Q ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          263 VMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      |..=|++.+... |.+...|..+..+..+.+.++++...|++.... ++.-+..|+.....+...++++.|.+.|+..++
T Consensus       413 A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999999876 667888888888888999999999999999877 677789999999999999999999999999987

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.2e-09  Score=88.91  Aligned_cols=84  Identities=8%  Similarity=-0.122  Sum_probs=43.6

Q ss_pred             CCHHHHHHHHHHHHhcC-CCCC--cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC
Q 044256           38 GNIRDASQLVKKMATFG-CRPN--VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR  114 (363)
Q Consensus        38 ~~~~~a~~~~~~m~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  114 (363)
                      +..+.++.-+.+++... ..|+  ...|..+...+...|+.++|...|++..+..       +.+...|+.+...+...|
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-------P~~~~a~~~lg~~~~~~g  112 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-------PDMADAYNYLGIYLTQAG  112 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-------CCCHHHHHHHHHHHHHCC
Confidence            44455555555555331 1111  1234455555555566666666666555543       334555555555666666


Q ss_pred             CHHHHHHHHHHHHH
Q 044256          115 LVDQTKDLFMEMKD  128 (363)
Q Consensus       115 ~~~~a~~~~~~~~~  128 (363)
                      +++.|...|++..+
T Consensus       113 ~~~~A~~~~~~Al~  126 (296)
T PRK11189        113 NFDAAYEAFDSVLE  126 (296)
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666655554

>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=99.36  E-value=4.2e-09  Score=90.70  Aligned_cols=280  Identities=14%  Similarity=0.111  Sum_probs=192.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHH-HHHHHHh-----cCC
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDT-LITGLRR-----TGN   74 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-l~~~~~~-----~~~   74 (363)
                      .|++++|++.++.-...  -+............+.+.|+.++|..+|..+++.+  |+...|.. +..+..-     ..+
T Consensus        17 ~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~   92 (517)
T PF12569_consen   17 AGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDED   92 (517)
T ss_pred             CCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccccccc
Confidence            48899999999887665  44256778888999999999999999999999985  56655544 4444422     225


Q ss_pred             hhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCcch-----hhhccCChHHHHH
Q 044256           75 MNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV-DQTKDLFMEMKDKGINANT-----LLCKKTKLVEANR  148 (363)
Q Consensus        75 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~-----~~~~~~~~~~a~~  148 (363)
                      .+....+|+++.+.-        |.......+.-.+..-..+ ..+...+..+...|+++--     .+.......-...
T Consensus        93 ~~~~~~~y~~l~~~y--------p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   93 VEKLLELYDELAEKY--------PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             HHHHHHHHHHHHHhC--------ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHH
Confidence            677788888887643        3333333332223222223 2444556666777755432     3333333444444


Q ss_pred             HHHHHHHc----C----------CCCch--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcC
Q 044256          149 LLELMMQR----G----------LNPVI--FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD-VFSYSVLINGYCKNF  211 (363)
Q Consensus       149 ~~~~~~~~----~----------~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  211 (363)
                      ++......    +          -+|+.  .++..+...|-..|++++|..+++..+++  .|+ +..|..-.+.+-..|
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCC
Confidence            44444322    1          13443  34466677888999999999999999988  455 567888888999999


Q ss_pred             ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHH--------HH
Q 044256          212 NVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEI--------FN  283 (363)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------~~  283 (363)
                      ++.+|...++.....+             ..|...-+-....+.+.|++++|.+++....+.+..|-...        ..
T Consensus       243 ~~~~Aa~~~~~Ar~LD-------------~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~  309 (517)
T PF12569_consen  243 DLKEAAEAMDEARELD-------------LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFET  309 (517)
T ss_pred             CHHHHHHHHHHHHhCC-------------hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHH
Confidence            9999999998887765             24666666678888999999999999999987764332221        24


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhh
Q 044256          284 SLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       284 ~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ....+|.+.|++..|++.|..+.+
T Consensus       310 e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  310 ECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHH
Confidence            456788899999999887766653

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.34  E-value=5.1e-09  Score=85.24  Aligned_cols=228  Identities=11%  Similarity=-0.065  Sum_probs=136.1

Q ss_pred             CChhHHHHHHHHHHhccCCCCCccCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHH
Q 044256           73 GNMNLTLKLHQEMVNGMGDFGGIYKP--NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLL  150 (363)
Q Consensus        73 ~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  150 (363)
                      +..+.++..+.+++....     ..|  ....|..+...+...|+++.|...|++..+..                    
T Consensus        40 ~~~e~~i~~~~~~l~~~~-----~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~--------------------   94 (296)
T PRK11189         40 LQQEVILARLNQILASRD-----LTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR--------------------   94 (296)
T ss_pred             hHHHHHHHHHHHHHcccc-----CCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--------------------
Confidence            456667777777775431     122  24557777778888888888888888887642                    


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHH
Q 044256          151 ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKK  230 (363)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  230 (363)
                              +.+...|+.+...+...|+++.|...|+...+.. +-+..+|..+..++...|++++|.+.+++..+..   
T Consensus        95 --------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~---  162 (296)
T PRK11189         95 --------PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD---  162 (296)
T ss_pred             --------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---
Confidence                    2245677777777788888888888887777652 1234566666677777788888888877776553   


Q ss_pred             HHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC--
Q 044256          231 IFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK--  308 (363)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--  308 (363)
                                 |+..........+...+++++|.+.+.+..... .++...+ .  ......|+...+ +.++.+.+.  
T Consensus       163 -----------P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~  226 (296)
T PRK11189        163 -----------PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGAT  226 (296)
T ss_pred             -----------CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCC
Confidence                       443222222222344567778887776654332 2222211 2  222234554443 233333321  


Q ss_pred             -CC---CccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 044256          309 -NL---VADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       309 -~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                       ..   +.....|..+...+.+.|++++|...|++..+.+ +||.+.+..
T Consensus       227 ~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~  275 (296)
T PRK11189        227 DNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRY  275 (296)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHH
Confidence             10   1123567777777778888888888888877643 345555544

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

Probab=99.30  E-value=1.5e-08  Score=81.43  Aligned_cols=303  Identities=14%  Similarity=-0.016  Sum_probs=208.9

Q ss_pred             CCCCchhhHHHHHHHHHh--cCCHHHHHHHHHHHHhc-CCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCc
Q 044256           19 YRPLNDVTFNSLIKGFCM--EGNIRDASQLVKKMATF-GCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGI   95 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   95 (363)
                      +.| +..+....+.+++.  .++...|...+-.+... -++-|+.....+..++...|+.++|...|++....+      
T Consensus       190 ~~~-~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d------  262 (564)
T KOG1174|consen  190 VPD-HFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN------  262 (564)
T ss_pred             cCC-CccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC------
Confidence            344 44444445555544  34444444444333332 245667778889999999999999999999988743      


Q ss_pred             cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-C--Ccch----hhhccCChHHHHHHHHHHHHcCCCCchhhHHHH
Q 044256           96 YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG-I--NANT----LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPL  168 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~--~~~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (363)
                       +-+........-.+.+.|+.+....+...+.... .  .|..    .+...++++.|+.+-++.++.+ +.+...|-.-
T Consensus       263 -py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilK  340 (564)
T KOG1174|consen  263 -PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILK  340 (564)
T ss_pred             -hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhc
Confidence             2334444444455677888888888777776543 1  1111    5567888999999999888775 3345556555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH
Q 044256          169 LNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN  248 (363)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (363)
                      ...+...+++++|.-.|+...... +-+..+|.-|+..|...|++.+|...-++..+.-             +.+..+..
T Consensus       341 G~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~-------------~~sA~~Lt  406 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF-------------QNSARSLT  406 (564)
T ss_pred             cHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh-------------hcchhhhh
Confidence            677888999999999999877652 3477899999999999999999988877765432             23444554


Q ss_pred             HHH-HHHHh-cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc
Q 044256          249 IFI-DGLCK-NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK  326 (363)
Q Consensus       249 ~ll-~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  326 (363)
                      .+. ..|.. ...-++|.+++++..+.. |.-....+.+...+...|..+.+..+++.....  .||....+.+...+..
T Consensus       407 L~g~~V~~~dp~~rEKAKkf~ek~L~~~-P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A  483 (564)
T KOG1174|consen  407 LFGTLVLFPDPRMREKAKKFAEKSLKIN-PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRA  483 (564)
T ss_pred             hhcceeeccCchhHHHHHHHHHhhhccC-CccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHH
Confidence            442 33332 223467888888777654 333456677778888888888888888888765  6788888888888888


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCH
Q 044256          327 EGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       327 ~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      .+.+++|.+.|...+.  +.|+.
T Consensus       484 ~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  484 QNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             hhhHHHHHHHHHHHHh--cCccc
Confidence            8888888888888776  34443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=4.1e-08  Score=81.60  Aligned_cols=343  Identities=15%  Similarity=0.058  Sum_probs=230.3

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|+++.|+..|......  .|.|...|..-..+|+..|++++|++=-.+-.+.  .|+ ...|.-...++.-.|++++|+
T Consensus        15 ~~d~~~ai~~~t~ai~l--~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   15 SGDFETAIRLFTEAIML--SPTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             cccHHHHHHHHHHHHcc--CCCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHHHHH
Confidence            48999999999999885  7768888999999999999999998877776655  566 347888888999999999999


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC-----------------C---------------------------
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR-----------------L---------------------------  115 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------------~---------------------------  115 (363)
                      ..|.+-.+..       +.|...++.+..++.-..                 +                           
T Consensus        91 ~ay~~GL~~d-------~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~  163 (539)
T KOG0548|consen   91 LAYSEGLEKD-------PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLK  163 (539)
T ss_pred             HHHHHHhhcC-------CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhh
Confidence            9999988864       445566666666552110                 0                           


Q ss_pred             ----HHHHHHHHHHHHHc--------C-------CCcch------------------------------hhhccCChHHH
Q 044256          116 ----VDQTKDLFMEMKDK--------G-------INANT------------------------------LLCKKTKLVEA  146 (363)
Q Consensus       116 ----~~~a~~~~~~~~~~--------~-------~~~~~------------------------------~~~~~~~~~~a  146 (363)
                          ........-.+...        +       ..|..                              ...+..++..|
T Consensus       164 ~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a  243 (539)
T KOG0548|consen  164 LYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETA  243 (539)
T ss_pred             cccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHH
Confidence                00000000000000        0       00000                              23345566667


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHH-------HHHHHHhcCChhHHHHH
Q 044256          147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSV-------LINGYCKNFNVEEAMNV  219 (363)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~  219 (363)
                      .+.+.......  -+..-++....+|...|.+..+...-....+.|.. ...-|+.       +..+|.+.++++.++..
T Consensus       244 ~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~  320 (539)
T KOG0548|consen  244 IQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKY  320 (539)
T ss_pred             HHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHH
Confidence            77777666654  34455566667777788777777666665555422 1122222       33356667888888888


Q ss_pred             HHHHHHhhH-----------H-HHHHHhHhcCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHH
Q 044256          220 SREMILNGF-----------K-KIFNEMKLCNVVPETF-TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLI  286 (363)
Q Consensus       220 ~~~~~~~~~-----------~-~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  286 (363)
                      +.+.+....           + .+-......-+.|... -...-...+.+.|++..|+..|.++++.. |.|...|..-.
T Consensus       321 ~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRA  399 (539)
T KOG0548|consen  321 YQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRA  399 (539)
T ss_pred             HHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHH
Confidence            887654331           0 1111111122233321 12222456778899999999999999887 88899999999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          287 RGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       287 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      -+|.+.|.+..|++-.+...+.+ ++....|..=..++....+|++|.+.|++.++  +.|+..-+.--+.-|..
T Consensus       400 ac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale--~dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  400 ACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALE--LDPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHH
Confidence            99999999999999888888774 44556666666677778899999999999998  56887777666666654

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

Probab=99.29  E-value=4.4e-09  Score=77.88  Aligned_cols=184  Identities=11%  Similarity=0.011  Sum_probs=86.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHH
Q 044256           28 NSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLI  107 (363)
Q Consensus        28 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  107 (363)
                      ..|.-.|...|++..|..-+++.++.. +-+..+|..+...|.+.|..+.|.+.|+...+..       +.+..+.|...
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-------p~~GdVLNNYG  110 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-------PNNGDVLNNYG  110 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-------CCccchhhhhh
Confidence            334444444444444444444444432 1122344444444444444444444444444432       33344444444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256          108 DGLCKDRLVDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      ..+|..|++++|...|++.......+..         +..+.|+++.|...|++.++.. +-...+...+.....+.|++
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y  189 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDY  189 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccc
Confidence            4444444444444444444443221111         2233444444444444444432 12233445555555666666


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHH
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSR  221 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (363)
                      -.|...++.....+. ++..+.-..|..-.+.|+.+.+.+.=.
T Consensus       190 ~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~  231 (250)
T COG3063         190 APARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQA  231 (250)
T ss_pred             hHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            666666666555543 555555555555555666555544433

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

Probab=99.26  E-value=1.3e-07  Score=80.47  Aligned_cols=340  Identities=11%  Similarity=0.106  Sum_probs=184.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPL--NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      |++......|++.+..  -|.  ...+|...+......+-++-++++|++.++.  .|  ..-+--|..++..+++++|.
T Consensus       116 ~~iT~tR~tfdrALra--LpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--~P--~~~eeyie~L~~~d~~~eaa  189 (835)
T KOG2047|consen  116 GLITRTRRTFDRALRA--LPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--AP--EAREEYIEYLAKSDRLDEAA  189 (835)
T ss_pred             chHHHHHHHHHHHHHh--CchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--CH--HHHHHHHHHHHhccchHHHH
Confidence            4455566677776654  231  4556777777777777777777777777753  23  23555566667777777777


Q ss_pred             HHHHHHHhccCCCCC------------------------------------ccCCc--hhhHHHHHHHHHhcCCHHHHHH
Q 044256           80 KLHQEMVNGMGDFGG------------------------------------IYKPN--VFCYGSLIDGLCKDRLVDQTKD  121 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~------------------------------------~~~~~--~~~~~~ll~~~~~~~~~~~a~~  121 (363)
                      +.+..........+.                                    ..-+|  -..|.+|...|.+.|++++|.+
T Consensus       190 ~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarD  269 (835)
T KOG2047|consen  190 QRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARD  269 (835)
T ss_pred             HHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            766655433221000                                    01112  2368999999999999999999


Q ss_pred             HHHHHHHcCCCcch------------------------------------------------------------------
Q 044256          122 LFMEMKDKGINANT------------------------------------------------------------------  135 (363)
Q Consensus       122 ~~~~~~~~~~~~~~------------------------------------------------------------------  135 (363)
                      +|++....-....+                                                                  
T Consensus       270 vyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV  349 (835)
T KOG2047|consen  270 VYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNV  349 (835)
T ss_pred             HHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccH
Confidence            99987765433222                                                                  


Q ss_pred             ------hhhccCChHHHHHHHHHHHHcCCCC------chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc---HhHH
Q 044256          136 ------LLCKKTKLVEANRLLELMMQRGLNP------VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD---VFSY  200 (363)
Q Consensus       136 ------~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  200 (363)
                            +-+..|+..+-...+.+..+. +.|      -...|..+...|-..|+++.|..+|++..+-..+--   ..+|
T Consensus       350 ~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw  428 (835)
T KOG2047|consen  350 EEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVW  428 (835)
T ss_pred             HHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHH
Confidence                  111223333333333333322 111      123455566666677777777777776665432211   2344


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhhHH---HHHHHhH--hcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 044256          201 SVLINGYCKNFNVEEAMNVSREMILNGFK---KIFNEMK--LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC  275 (363)
Q Consensus       201 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  275 (363)
                      ......=.++.+++.|+.++++...-...   ..++...  +..+.-+...|...++.--..|-++....+|+.+.+..+
T Consensus       429 ~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  429 CAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc
Confidence            44444445566667776666655322110   0011000  000111233455555555566777777777777776653


Q ss_pred             cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc-HHHHHHHHHHHHc---cCChhHHHHHHHHHHHcCCCCCHH
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD-VVAYNILIHALGK---EGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      . ++.+.......+-.+.-++++.+++++-...=..|+ ...|+..+.-+.+   ....+.|..+|++.++ |++|...
T Consensus       509 a-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~a  585 (835)
T KOG2047|consen  509 A-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHA  585 (835)
T ss_pred             C-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHH
Confidence            2 233333333334445556677777766555422333 2456665554432   2346677777777777 5555443

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

Probab=99.26  E-value=1.6e-07  Score=75.74  Aligned_cols=278  Identities=15%  Similarity=0.057  Sum_probs=199.2

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQ   83 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~   83 (363)
                      ..|.+.+-.+......|.|+.....+.+++...|+.++|...|++....  .|+.. ......-.+.+.|+.++...+..
T Consensus       213 s~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~  290 (564)
T KOG1174|consen  213 SDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMD  290 (564)
T ss_pred             chhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHH
Confidence            3444444444444456778899999999999999999999999988754  33322 22222333457788888888877


Q ss_pred             HHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHc
Q 044256           84 EMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      .+....       .-+...|..-+......++++.|+.+-++.++.....-.       .+...+++++|.-.|......
T Consensus       291 ~Lf~~~-------~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L  363 (564)
T KOG1174|consen  291 YLFAKV-------KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML  363 (564)
T ss_pred             HHHhhh-------hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc
Confidence            777643       345555666666667778899999998888775433322       667888999999999887765


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHH-HHH-HhcCChhHHHHHHHHHHHhhHHHHHHH
Q 044256          157 GLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLI-NGY-CKNFNVEEAMNVSREMILNGFKKIFNE  234 (363)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~  234 (363)
                      . |.+...|..|+..|...|.+.+|...-+..... ++.+..+...+. ..+ -...--++|..++++.++..       
T Consensus       364 a-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~-------  434 (564)
T KOG1174|consen  364 A-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKIN-------  434 (564)
T ss_pred             c-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccC-------
Confidence            3 456789999999999999999988777655443 233445554442 222 23344577877777665543       


Q ss_pred             hHhcCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          235 MKLCNVVPE-TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       235 ~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                             |+ ....+.+...|...|..+.++.++++....  .||....+.|.+.+...+.+.+|...|....+.+
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                   54 345667778888999999999999988765  6888899999999999999999999999988764

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

Probab=99.23  E-value=3.4e-08  Score=73.28  Aligned_cols=182  Identities=13%  Similarity=0.005  Sum_probs=128.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++..|.+-++++++.  .|.+..+|..+...|.+.|..+.|.+.|++..+.. +-+..+.|.....+|..|++++|.+
T Consensus        48 ~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~eA~q  124 (250)
T COG3063          48 QGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPEEAMQ  124 (250)
T ss_pred             CCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChHHHHH
Confidence            36777778888888776  67667777778888888888888888888777663 3345567777777777778888888


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELM  153 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~  153 (363)
                      .|++......     ..--..+|..+.-+..+.|+++.|...|++..+....-..       .....|++..|..+++..
T Consensus       125 ~F~~Al~~P~-----Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~  199 (250)
T COG3063         125 QFERALADPA-----YGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERY  199 (250)
T ss_pred             HHHHHHhCCC-----CCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHH
Confidence            8887776431     2223567777777777788888888888877765443222       456677777787777777


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          154 MQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK  191 (363)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (363)
                      ...+. ++..+.-..|..-...|+.+.+-+.=..+...
T Consensus       200 ~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         200 QQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             Hhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            77664 66666666677777777777777766565554

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

Probab=99.20  E-value=2.6e-07  Score=78.01  Aligned_cols=300  Identities=12%  Similarity=-0.002  Sum_probs=170.4

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCccc---HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCcc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT---CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIY   96 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   96 (363)
                      .|..+..|..+...+...|+.+.+...+....+.. +++...   .......+...|++++|...+++..+..       
T Consensus         2 dp~~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-------   73 (355)
T cd05804           2 DPDFALGHAAAALLLLLGGERPAAAAKAAAAAQAL-AARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-------   73 (355)
T ss_pred             CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------
Confidence            35455566666666666777777666666655432 222211   2222334456677777777777777643       


Q ss_pred             CCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHHHHHHHHHcCCCCchh
Q 044256           97 KPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANRLLELMMQRGLNPVIF  163 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~~~~~~~~~~~~~~~~  163 (363)
                      +.+...+.. ...+..    .+....+.+.++.  .....|..         .+...|++++|...+++..+.. +.+..
T Consensus        74 P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~  149 (355)
T cd05804          74 PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAW  149 (355)
T ss_pred             CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcH
Confidence            333333332 112222    3344444444433  11122222         3456777788888887777764 44567


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcH--hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGF-MPDV--FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      .+..+...+...|++++|..++++...... .|+.  ..|..+...+...|++++|..++++.....           ..
T Consensus       150 ~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~-----------~~  218 (355)
T cd05804         150 AVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPS-----------AE  218 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccc-----------cC
Confidence            788888999999999999999998876532 2232  245567788899999999998888764221           00


Q ss_pred             CCChHHH-H--HHHHHHHhcCCHHHHHHHHHHHHhc---cC--cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC-
Q 044256          241 VPETFTC-N--IFIDGLCKNGHVLEVMELFPTLEIS---NC--ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV-  311 (363)
Q Consensus       241 ~~~~~~~-~--~ll~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-  311 (363)
                      .+..... +  .++.-+...|....+.+. +.+...   ..  ............++...|+.+.|..+++.+...... 
T Consensus       219 ~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~  297 (355)
T cd05804         219 SDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSA  297 (355)
T ss_pred             CChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcc
Confidence            1111111 1  223333334433333222 222111   10  111222235667788899999999999988753211 


Q ss_pred             -----ccHHHHHHHH--HHHHccCChhHHHHHHHHHHHc
Q 044256          312 -----ADVVAYNILI--HALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       312 -----~~~~~~~~li--~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                           ....+-..++  .++...|++++|.+.+......
T Consensus       298 ~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         298 DDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             CchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 0111222233  3456899999999999988764

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.19  E-value=2.7e-07  Score=72.70  Aligned_cols=297  Identities=12%  Similarity=0.001  Sum_probs=210.6

Q ss_pred             cCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHH---HHHHHhcCChhHHHHHHHHHHhccCCCC
Q 044256           17 RCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTL---ITGLRRTGNMNLTLKLHQEMVNGMGDFG   93 (363)
Q Consensus        17 ~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~   93 (363)
                      .+..|.++.----+...+..+|++.+|+.-|....+-    |+..|.++   ...|...|+...|+.-++..++      
T Consensus        31 ~~~~~advekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle------  100 (504)
T KOG0624|consen   31 STASPADVEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE------  100 (504)
T ss_pred             hcCCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHh------
Confidence            3445545666667788888899999999999888753    44444444   4567888999999999999888      


Q ss_pred             CccCCchhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----------------------hhhccCChHHHHHHH
Q 044256           94 GIYKPNVFCYG-SLIDGLCKDRLVDQTKDLFMEMKDKGINANT----------------------LLCKKTKLVEANRLL  150 (363)
Q Consensus        94 ~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------~~~~~~~~~~a~~~~  150 (363)
                        .+||...-. .-...+.+.|.++.|..-|+.+++.......                      .+...|+...|...+
T Consensus       101 --lKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  101 --LKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             --cCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHH
Confidence              567743322 2345678899999999999999887553332                      445678888888888


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHH
Q 044256          151 ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKK  230 (363)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  230 (363)
                      ..+++.. +-+...|..-..+|...|++..|+.=++..-+.. ..++.++-.+-..+...|+.+.++...++.++.+   
T Consensus       179 ~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld---  253 (504)
T KOG0624|consen  179 THLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD---  253 (504)
T ss_pred             HHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC---
Confidence            8888764 4466677777888999999999988777665543 2355666666777888999999988888877655   


Q ss_pred             HHHHhHhcCCCCChHH----HHHH---------HHHHHhcCCHHHHHHHHHHHHhccCcch---HHHHHHHHHHHHhcCC
Q 044256          231 IFNEMKLCNVVPETFT----CNIF---------IDGLCKNGHVLEVMELFPTLEISNCELF---VEIFNSLIRGCCKFGI  294 (363)
Q Consensus       231 ~~~~~~~~~~~~~~~~----~~~l---------l~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~  294 (363)
                                 ||...    |-.+         +......+++.++++-.+...+......   ...+..+-.++...++
T Consensus       254 -----------pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~  322 (504)
T KOG0624|consen  254 -----------PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQ  322 (504)
T ss_pred             -----------cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCC
Confidence                       33221    1111         1223455677777777777665532211   2234556667777888


Q ss_pred             hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          295 FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       295 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +.+|++...+++... +.|..++.--..+|.-...++.|+.-|+...+
T Consensus       323 ~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  323 FGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            999999888888763 34578888888888888889999988888877

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.19  E-value=9.8e-08  Score=75.46  Aligned_cols=142  Identities=10%  Similarity=0.033  Sum_probs=79.7

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      .|+..|+.+++--...+-.. ...+---+..++...|++++|+..|..+.... .|+...+..|..++.-.|.+.+|.++
T Consensus        36 rDytGAislLefk~~~~~EE-E~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~  113 (557)
T KOG3785|consen   36 RDYTGAISLLEFKLNLDREE-EDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSI  113 (557)
T ss_pred             ccchhHHHHHHHhhccchhh-hHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHH
Confidence            46778888887766543332 22233334566778899999999998877654 56777777777777778888888776


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCcchhhhccCChHHHHHHHHHHHHc
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK---GINANTLLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      -...           +.++-.-..|+..-.+.++-++-..+-+.+.+.   .+...+.....-.+++|.+++..+...
T Consensus       114 ~~ka-----------~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  114 AEKA-----------PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HhhC-----------CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5433           222222233334444445544444433333221   111111233344555666666655544

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

Probab=99.18  E-value=1.8e-07  Score=79.03  Aligned_cols=289  Identities=11%  Similarity=0.004  Sum_probs=167.8

Q ss_pred             hhhhhHHHHHHHHHHcCC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHH----hcCChh
Q 044256            2 SKVLGALMAFGSFIRRCY-RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLR----RTGNMN   76 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~----~~~~~~   76 (363)
                      |+.+.+.+.+....+... .+............+...|++++|..++++..+.. +.+...+.. ...+.    ..+..+
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~   97 (355)
T cd05804          20 GERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRD   97 (355)
T ss_pred             CCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCch
Confidence            455666666666655422 11112233334455678899999999999988763 333334442 22222    234555


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHH
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRL  149 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~  149 (363)
                      .+.+.++.... .      .+........+...+...|++++|...+++..+..+....       ++...|++++|...
T Consensus        98 ~~~~~l~~~~~-~------~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~  170 (355)
T cd05804          98 HVARVLPLWAP-E------NPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAF  170 (355)
T ss_pred             hHHHHHhccCc-C------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            55555544111 1      2233444556667888999999999999999886544322       66788999999999


Q ss_pred             HHHHHHcCC-CCch--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcHhHH-H--HHHHHHHhcCChhHHHHHHHH
Q 044256          150 LELMMQRGL-NPVI--FTYTPLLNGYCLVGKVNVAIALFDSMARKGF-MPDVFSY-S--VLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       150 ~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      +++...... .|+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|....+... +.
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~  249 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-ED  249 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HH
Confidence            998877542 1222  3455688889999999999999999864422 1122111 1  223333334443333221 11


Q ss_pred             HHHhhHHHHHHHhHhcCC-CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc------c--hHHHHHHHHHHHHhcC
Q 044256          223 MILNGFKKIFNEMKLCNV-VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE------L--FVEIFNSLIRGCCKFG  293 (363)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~--~~~~~~~li~~~~~~~  293 (363)
                      +...        -..... ............++...|+.+.|..++..+......      .  ..........++...|
T Consensus       250 ~~~~--------~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g  321 (355)
T cd05804         250 LADY--------AAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEG  321 (355)
T ss_pred             HHHH--------HHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcC
Confidence            1110        000000 111122224566778889999999999988754322      1  1222233334456889


Q ss_pred             ChHHHHHHHHHhhhC
Q 044256          294 IFEIASELFNKLSCK  308 (363)
Q Consensus       294 ~~~~a~~~~~~~~~~  308 (363)
                      +.++|.+.+......
T Consensus       322 ~~~~A~~~L~~al~~  336 (355)
T cd05804         322 NYATALELLGPVRDD  336 (355)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887753

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.16  E-value=1e-06  Score=76.65  Aligned_cols=194  Identities=12%  Similarity=0.085  Sum_probs=117.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ++..|..+.-++...|+++.+.+.|++....- --..+.|+.+...+...|.-..|..+++.-.....     -+++...
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~-----~ps~~s~  395 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSE-----QPSDISV  395 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhccccc-----CCCcchH
Confidence            78888888888899999999999998876542 33556788888888888888888888877665331     1223333


Q ss_pred             HHHHHHHHH-hcCCHHHHHHHHHHHHHcC------CCcch------hh-----------hccCChHHHHHHHHHHHHcCC
Q 044256          103 YGSLIDGLC-KDRLVDQTKDLFMEMKDKG------INANT------LL-----------CKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus       103 ~~~ll~~~~-~~~~~~~a~~~~~~~~~~~------~~~~~------~~-----------~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      +-..-..|. +.+..++++++-.+..+..      +.|-.      .|           .+.....++.+.+++..+.+.
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            333333333 3466667666666665521      11111      00           112233456666666666542


Q ss_pred             -CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          159 -NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       159 -~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                       .|+...|  +.--|+-.++.+.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+...
T Consensus       476 ~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al  540 (799)
T KOG4162|consen  476 TDPLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAAL  540 (799)
T ss_pred             CCchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence             2322222  333355567777777777777666545566677766666666677777766665543

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

Probab=99.08  E-value=2.7e-06  Score=72.71  Aligned_cols=214  Identities=13%  Similarity=0.017  Sum_probs=155.8

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      +++...++..+.+++.  .|...++.....-.+...|+-++|........+.. ..+...|+.+.-.+....++++|++.
T Consensus        21 kQYkkgLK~~~~iL~k--~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   21 KQYKKGLKLIKQILKK--FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHhHHHHHHHHHHh--CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHH
Confidence            5666677777777775  55566777766666778899999999888877654 34677899988888888999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~  154 (363)
                      |..+...+       +.|...|.-+.-..++.|+++.......++.+..+....       +..-.|++..|..+++...
T Consensus        98 y~nAl~~~-------~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~  170 (700)
T KOG1156|consen   98 YRNALKIE-------KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFE  170 (700)
T ss_pred             HHHHHhcC-------CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999865       677888888888888888888888887777765332222       4556889999999999887


Q ss_pred             HcC-CCCchhhHHHHHH------HHHhcCCHHHHHHHHHHHHHcCCCCcHhHH-HHHHHHHHhcCChhHHHHHHHHHHHh
Q 044256          155 QRG-LNPVIFTYTPLLN------GYCLVGKVNVAIALFDSMARKGFMPDVFSY-SVLINGYCKNFNVEEAMNVSREMILN  226 (363)
Q Consensus       155 ~~~-~~~~~~~~~~li~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (363)
                      +.. ..|+...+.....      .....|..+.|.+.+..-...  ..|...+ ..-...+.+.++.++|..++..++..
T Consensus       171 ~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r  248 (700)
T KOG1156|consen  171 KTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER  248 (700)
T ss_pred             HhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh
Confidence            765 3566655544432      344577888888777654443  2233333 23445677889999999999888766


Q ss_pred             h
Q 044256          227 G  227 (363)
Q Consensus       227 ~  227 (363)
                      .
T Consensus       249 n  249 (700)
T KOG1156|consen  249 N  249 (700)
T ss_pred             C
Confidence            5

>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=99.08  E-value=1.3e-08  Score=81.74  Aligned_cols=150  Identities=14%  Similarity=0.081  Sum_probs=79.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHH
Q 044256          170 NGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNI  249 (363)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (363)
                      ..+...|+++.|++++...      .+.......+..|.+.++++.|.+.++.|.+.+              .| .+...
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--------------eD-~~l~q  168 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--------------ED-SILTQ  168 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--------------CC-HHHHH
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--------------Cc-HHHHH
Confidence            3444556666666655431      244455555666666666666655555443221              22 23333


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          250 FIDGLCK----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       250 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      +..++..    .+.+.+|..+|+++.+. +++++.+.+.+..++...|++++|.+++.+....+ +-++.+...++.+..
T Consensus       169 La~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~  246 (290)
T PF04733_consen  169 LAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSL  246 (290)
T ss_dssp             HHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHH
Confidence            4443332    22466666666665543 35566666666666666666666666666665543 335555555666555


Q ss_pred             ccCCh-hHHHHHHHHHHH
Q 044256          326 KEGQI-KKENYLLLSMEE  342 (363)
Q Consensus       326 ~~g~~-~~a~~~~~~m~~  342 (363)
                      ..|+. +.+.+.+.++..
T Consensus       247 ~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  247 HLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HTT-TCHHHHHHHHHCHH
T ss_pred             HhCCChhHHHHHHHHHHH
Confidence            56655 445556666554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.06  E-value=7e-08  Score=74.47  Aligned_cols=188  Identities=14%  Similarity=0.134  Sum_probs=111.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH-
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS-  105 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-  105 (363)
                      +.+++..+.+..++.+|++++..-.++. +.+......|..+|.+..++..|-..|+++-.        ..|...-|.. 
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--------l~P~~~qYrlY   83 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--------LHPELEQYRLY   83 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------hChHHHHHHHH
Confidence            5556666677777888888777766653 22566677777777777788888888887776        3454444442 


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      -...+.+.+.+..|+++...|.+..--.+.       ...+.+++..+..++++....+   +..+.+...-...+.|++
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            244556677777777777776553111111       3344555555555555543322   222333333334566777


Q ss_pred             HHHHHHHHHHHHc-CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH
Q 044256          179 NVAIALFDSMARK-GFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       179 ~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (363)
                      +.|.+-|+...+- |.. ....|+..+. ..+.++++.|++...+++..|+
T Consensus       161 EaAvqkFqaAlqvsGyq-pllAYniALa-Hy~~~qyasALk~iSEIieRG~  209 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQ-PLLAYNLALA-HYSSRQYASALKHISEIIERGI  209 (459)
T ss_pred             HHHHHHHHHHHhhcCCC-chhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhh
Confidence            7777777766554 333 3455655443 3355677777777777766664

>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=99.06  E-value=1.6e-08  Score=81.17  Aligned_cols=244  Identities=11%  Similarity=0.033  Sum_probs=147.0

Q ss_pred             hhhhhHHHHHHHHHHcCCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRP-LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      |++..++.-.+ ....  .| .+.....-+.+++...|+++.++   .++.... .|.......+...+...++-+.++.
T Consensus        15 G~Y~~~i~e~~-~~~~--~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   15 GNYQQCINEAS-LKSF--SPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             T-HHHHCHHHH-CHTS--TCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             hhHHHHHHHhh-ccCC--CchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            56666665444 2221  22 13444556677777777766543   3333322 4555555444444433234444444


Q ss_pred             HHHHHHhccCCCCCccC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCC
Q 044256           81 LHQEMVNGMGDFGGIYK-PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLN  159 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (363)
                      -+++.....      .. .+..........+...|++++|++++...                                 
T Consensus        88 ~l~~~~~~~------~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~---------------------------------  128 (290)
T PF04733_consen   88 ELKELLADQ------AGESNEIVQLLAATILFHEGDYEEALKLLHKG---------------------------------  128 (290)
T ss_dssp             HHHHCCCTS---------CHHHHHHHHHHHHCCCCHHHHHHCCCTTT---------------------------------
T ss_pred             HHHHHHHhc------cccccHHHHHHHHHHHHHcCCHHHHHHHHHcc---------------------------------
Confidence            444333322      12 22222223334555667777777665431                                 


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK----NFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                      .+.......+..|.+.++++.|.+.++.|.+.  ..|. +..-+..++..    .+.+.+|..+|+++...         
T Consensus       129 ~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~---------  196 (290)
T PF04733_consen  129 GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK---------  196 (290)
T ss_dssp             TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC---------
T ss_pred             CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc---------
Confidence            23456667788999999999999999999876  3343 33334444432    34689998777776443         


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCCh-HHHHHHHHHhhhC
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF-EIASELFNKLSCK  308 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~~  308 (363)
                          ..+++.+.+.+..++...|++++|.+++.+....+ +-++.+...++.+....|+. +.+.+.+.++...
T Consensus       197 ----~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  197 ----FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             ----S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             ----cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence                34788888999999999999999999999988765 66777888888888888887 7788899988865

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=99.05  E-value=4.5e-07  Score=83.70  Aligned_cols=227  Identities=12%  Similarity=0.022  Sum_probs=108.6

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhcc
Q 044256           61 TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKK  140 (363)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  140 (363)
                      .|-..|......++.+.|.++.+++...-...+  -.--..+|.++++.-...|.-+...++|++..+.           
T Consensus      1460 ~WI~YMaf~LelsEiekAR~iaerAL~tIN~RE--eeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy----------- 1526 (1710)
T KOG1070|consen 1460 LWIRYMAFHLELSEIEKARKIAERALKTINFRE--EEEKLNIWIAYLNLENAYGTEESLKKVFERACQY----------- 1526 (1710)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcch--hHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh-----------
Confidence            444445555555555555555555543311000  0011234555555444455555555555555432           


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHH
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVS  220 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  220 (363)
                                        -.....|..|...|.+.+..++|.++++.|.+. +.-....|...+..+.+.++.+.|..++
T Consensus      1527 ------------------cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL 1587 (1710)
T KOG1070|consen 1527 ------------------CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELL 1587 (1710)
T ss_pred             ------------------cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHH
Confidence                              011234555555555555555555555555544 2234445555555555555555555555


Q ss_pred             HHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHH
Q 044256          221 REMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASE  300 (363)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  300 (363)
                      .++++.-+        +   .-......-.++.-.+.|+.+.+..+|+...... |--...|+.+|+.-.++|+.+.++.
T Consensus      1588 ~rAL~~lP--------k---~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~ 1655 (1710)
T KOG1070|consen 1588 KRALKSLP--------K---QEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRD 1655 (1710)
T ss_pred             HHHHhhcc--------h---hhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHH
Confidence            55544320        0   0012233333444445566666666666555442 3344556666666666666666666


Q ss_pred             HHHHhhhCCCCcc--HHHHHHHHHHHHccCChh
Q 044256          301 LFNKLSCKNLVAD--VVAYNILIHALGKEGQIK  331 (363)
Q Consensus       301 ~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~  331 (363)
                      +|+++...++.|.  -..|.-.+.-=-+.|+-.
T Consensus      1656 lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1656 LFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             HHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            6666665554433  223444443333344433

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

Probab=99.05  E-value=6.7e-08  Score=81.06  Aligned_cols=260  Identities=11%  Similarity=0.005  Sum_probs=164.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhc
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKD  113 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  113 (363)
                      +.++|++.+|.-.|+...+.. +-+...|..|.......++-..|+..+++..+..       +.|....-.|.-.|...
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-------P~NleaLmaLAVSytNe  366 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-------PTNLEALMALAVSYTNE  366 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-------CccHHHHHHHHHHHhhh
Confidence            456777777777777766653 3356677777777777777777777777777754       44566666677777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH-HHHcC
Q 044256          114 RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDS-MARKG  192 (363)
Q Consensus       114 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~  192 (363)
                      |.-..|.+.++..+...++-..  ..               ..+  ++...-..  ..+..........++|-+ ....+
T Consensus       367 g~q~~Al~~L~~Wi~~~p~y~~--l~---------------~a~--~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~  425 (579)
T KOG1125|consen  367 GLQNQALKMLDKWIRNKPKYVH--LV---------------SAG--ENEDFENT--KSFLDSSHLAHIQELFLEAARQLP  425 (579)
T ss_pred             hhHHHHHHHHHHHHHhCccchh--cc---------------ccC--ccccccCC--cCCCCHHHHHHHHHHHHHHHHhCC
Confidence            7777777777776554321110  00               000  00000000  111111222333444433 34455


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256          193 FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       193 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      ..+|+.....|--.|.-.|++++|++.|+.++...             +.|..+||-|...++...+.++|+..|.+.++
T Consensus       426 ~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-------------Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq  492 (579)
T KOG1125|consen  426 TKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-------------PNDYLLWNRLGATLANGNRSEEAISAYNRALQ  492 (579)
T ss_pred             CCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-------------CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh
Confidence            45677777777777888899999998888887654             34567899999999988899999999999887


Q ss_pred             ccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC---------CCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          273 SNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN---------LVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       273 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      .. |--+.+.-.|..+|...|.+++|.+.|-.++...         ..++...|.+|=.++.-.++.|-+.+.
T Consensus       493 Lq-P~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  493 LQ-PGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             cC-CCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            64 3335566677788899999999998887665331         112345677666666667776655443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=1.3e-06  Score=67.68  Aligned_cols=278  Identities=15%  Similarity=0.144  Sum_probs=185.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHH-HHHHHHhcCChhHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDT-LITGLRRTGNMNLTLK   80 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~   80 (363)
                      .++++|++++..-.++  .|.+......+..+|-...++..|-+.|+++...  .|...-|.. -.+.+.+.+.+..|+.
T Consensus        24 ~ry~DaI~~l~s~~Er--~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~ADALr   99 (459)
T KOG4340|consen   24 ARYADAIQLLGSELER--SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYADALR   99 (459)
T ss_pred             hhHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccHHHHH
Confidence            4678899999888887  5657888999999999999999999999999876  565554432 3455667889999999


Q ss_pred             HHHHHHhccCCCCCccCCchhh--HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC---cch--hhhccCChHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFC--YGSLIDGLCKDRLVDQTKDLFMEMKDKGIN---ANT--LLCKKTKLVEANRLLELM  153 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~--~~~~~~~~~~a~~~~~~~  153 (363)
                      +...|...         |+...  ...-.......+++..+..++++....+-.   .+.  ...+.|+++.|.+-|...
T Consensus       100 V~~~~~D~---------~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaA  170 (459)
T KOG4340|consen  100 VAFLLLDN---------PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAA  170 (459)
T ss_pred             HHHHhcCC---------HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHH
Confidence            98877642         22211  111122234578888888888887643211   111  567899999999999998


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-------------cHh--------HHHHHHH-------
Q 044256          154 MQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP-------------DVF--------SYSVLIN-------  205 (363)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~~--------~~~~l~~-------  205 (363)
                      .+.+--.....|+..+..| +.|+++.|.+...++.++|++.             |..        .-+.++.       
T Consensus       171 lqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaA  249 (459)
T KOG4340|consen  171 LQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAA  249 (459)
T ss_pred             HhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhh
Confidence            8764333456787666544 6799999999999998876531             211        1223333       


Q ss_pred             HHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHH
Q 044256          206 GYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSL  285 (363)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  285 (363)
                      .+.+.++++.|.+.+-.|..           +.....|++|...+.-.- ..+++....+-+.-+...+ |....||..+
T Consensus       250 Ieyq~~n~eAA~eaLtDmPP-----------RaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANl  316 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPP-----------RAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANL  316 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCC-----------cccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHH
Confidence            34567777777655544432           222335666665543221 2345555555555555554 3446788888


Q ss_pred             HHHHHhcCChHHHHHHHHHhh
Q 044256          286 IRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~~~  306 (363)
                      +-.||+..-++.|-.++.+-.
T Consensus       317 LllyCKNeyf~lAADvLAEn~  337 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAENA  337 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhCc
Confidence            888999888888887776543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.00  E-value=1.1e-06  Score=76.38  Aligned_cols=312  Identities=12%  Similarity=-0.016  Sum_probs=192.1

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQ   83 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   83 (363)
                      ..++++.+++..+.  .|.|+.+...+.--|+..++.+.|.+...+..+.+-.-+...|..+.-++...+++.+|+.+.+
T Consensus       460 h~kslqale~av~~--d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd  537 (799)
T KOG4162|consen  460 HKKSLQALEEAVQF--DPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVD  537 (799)
T ss_pred             HHHHHHHHHHHHhc--CCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            45778888888886  5556666566666678889999999999999988657788899999999999999999999999


Q ss_pred             HHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH--cCCCCc
Q 044256           84 EMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ--RGLNPV  161 (363)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~  161 (363)
                      ...+..       ..|......-+..-...++.++++.....+...--. .......++-....+....+.-  ....-.
T Consensus       538 ~al~E~-------~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~-~~~~q~~~~~g~~~~lk~~l~la~~q~~~a  609 (799)
T KOG4162|consen  538 AALEEF-------GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEA-EYGVQQTLDEGKLLRLKAGLHLALSQPTDA  609 (799)
T ss_pred             HHHHHh-------hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHh-hhhHhhhhhhhhhhhhhcccccCccccccc
Confidence            887753       344444444444445567777777776666532000 0000001111111111111100  000111


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--Cc------HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHH
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM--PD------VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFN  233 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  233 (363)
                      ..++..+.......+........   +......  |+      ...|......+.+.+..++|.-.+.+..+..      
T Consensus       610 ~s~sr~ls~l~a~~~~~~~se~~---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~------  680 (799)
T KOG4162|consen  610 ISTSRYLSSLVASQLKSAGSELK---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID------  680 (799)
T ss_pred             chhhHHHHHHHHhhhhhcccccc---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc------
Confidence            12222222211111100000000   1111111  12      1234455666777788888877777765443      


Q ss_pred             HhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHH--HHHHhhhCCCC
Q 044256          234 EMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASE--LFNKLSCKNLV  311 (363)
Q Consensus       234 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~--~~~~~~~~~~~  311 (363)
                             +-....|......+...|...+|.+.|......+ |-++.+.+++..++.+.|+..-|..  ++..+.+.+ +
T Consensus       681 -------~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p  751 (799)
T KOG4162|consen  681 -------PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-P  751 (799)
T ss_pred             -------hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-C
Confidence                   2344556655666777888888888888877765 5566778888888888888777777  888888876 5


Q ss_pred             ccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          312 ADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       312 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .+...|..+...+-+.|+.+.|...|....+.
T Consensus       752 ~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  752 LNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            57888888888888888888888888877663

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

Probab=98.98  E-value=5.7e-07  Score=77.75  Aligned_cols=214  Identities=10%  Similarity=-0.076  Sum_probs=110.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIAL  184 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  184 (363)
                      .+...+...|-...|..+|+++..-.. .-..|+..|+..+|..+..+..+.  +|+...|..+.+..-...-+++|.++
T Consensus       403 ~laell~slGitksAl~I~Erlemw~~-vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawEl  479 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERLEMWDP-VILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWEL  479 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhHHHHHH-HHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHH
Confidence            344444455555555555544431100 000233333333333333333331  45555555555554444445555555


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHH
Q 044256          185 FDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVM  264 (363)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  264 (363)
                      .+..-.+       .-..+.....+.++++++.+.++.-.+..             +.-..+|-.+..+..+.++++.|.
T Consensus       480 sn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-------------plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  480 SNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-------------PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             hhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-------------ccchhHHHhccHHHHHHhhhHHHH
Confidence            5443221       01111111223455555555554433322             122345555555666667777777


Q ss_pred             HHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          265 ELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       265 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +.|....... |-+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|++.+.++.+.
T Consensus       540 ~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  540 KAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            7776666543 4455667777777777777777777777776665 445666666666666777777777777766543

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

Probab=98.98  E-value=5.2e-06  Score=71.10  Aligned_cols=309  Identities=12%  Similarity=0.119  Sum_probs=188.0

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATF-GCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVF  101 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  101 (363)
                      =+.+|-..+..+.++|++......|+..+.. .+......|...+......+-++-+..+|++..+.        .|  .
T Consensus       101 mpRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--------~P--~  170 (835)
T KOG2047|consen  101 MPRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--------AP--E  170 (835)
T ss_pred             CCHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--------CH--H
Confidence            3567888888889999999999999987754 33334567888888888889999999999999873        34  3


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------------hhhccCChHH---HHHHHHHHHHcCCCCc--h
Q 044256          102 CYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------------LLCKKTKLVE---ANRLLELMMQRGLNPV--I  162 (363)
Q Consensus       102 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------~~~~~~~~~~---a~~~~~~~~~~~~~~~--~  162 (363)
                      .-+-.+..++..+++++|.+.+..........+.              ...+..+.-.   ...++......  -+|  .
T Consensus       171 ~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g  248 (835)
T KOG2047|consen  171 AREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLG  248 (835)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHH
Confidence            4777888899999999999999887654221111              1111111111   11222222211  233  3


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc----------------CC------hhHHHHHH
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN----------------FN------VEEAMNVS  220 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~------~~~a~~~~  220 (363)
                      ..|++|.+.|.+.|.+++|..+|++....  ..+..-|..+.++|++-                ++      ++-...-|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            57899999999999999999999987765  22333333333333221                11      11122223


Q ss_pred             HHHHHhhH--------------------------------HHHHHHhHhcCCCC------ChHHHHHHHHHHHhcCCHHH
Q 044256          221 REMILNGF--------------------------------KKIFNEMKLCNVVP------ETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       221 ~~~~~~~~--------------------------------~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~  262 (363)
                      +.+.....                                -..+.+..+ .+.|      -...|..+...|-..|+++.
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~-~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~  405 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVK-TVDPKKAVGSPGTLWVEFAKLYENNGDLDD  405 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHH-ccCcccCCCChhhHHHHHHHHHHhcCcHHH
Confidence            33322211                                111111111 0111      12356677777888888888


Q ss_pred             HHHHHHHHHhccCcch---HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC-----------Cc------cHHHHHHHHH
Q 044256          263 VMELFPTLEISNCELF---VEIFNSLIRGCCKFGIFEIASELFNKLSCKNL-----------VA------DVVAYNILIH  322 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----------~~------~~~~~~~li~  322 (363)
                      |..+|++..+.+.+--   ..+|..-...-.+..+++.|.++.+......-           ++      +...|..+++
T Consensus       406 aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~D  485 (835)
T KOG2047|consen  406 ARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYAD  485 (835)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHH
Confidence            8888888876653322   34555555555677778888887776653211           11      2334555555


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCC
Q 044256          323 ALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      .--..|-++....+|+++++..+.
T Consensus       486 leEs~gtfestk~vYdriidLria  509 (835)
T KOG2047|consen  486 LEESLGTFESTKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHhccHHHHHHHHHHHHHHhcC
Confidence            555667777778888887776543

>PLN02789 farnesyltranstransferase

Probab=98.97  E-value=4.5e-06  Score=68.18  Aligned_cols=216  Identities=7%  Similarity=-0.008  Sum_probs=144.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-ChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-NMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      .++..+-..+...++.++|+.+++++++.. +-+..+|+....++...+ ++++++..++.+.+..       +.+..+|
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-------pknyqaW  109 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-------PKNYQIW  109 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-------CcchHHh
Confidence            445555566677788899999999998763 234446776666777777 5789999999998865       5666778


Q ss_pred             HHHHHHHHhcCCH--HHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHH
Q 044256          104 GSLIDGLCKDRLV--DQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVA  181 (363)
Q Consensus       104 ~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  181 (363)
                      +.....+.+.|..  ++++.+++++.+.                           + +-+..+|+...-++...|+++++
T Consensus       110 ~~R~~~l~~l~~~~~~~el~~~~kal~~---------------------------d-pkNy~AW~~R~w~l~~l~~~~ee  161 (320)
T PLN02789        110 HHRRWLAEKLGPDAANKELEFTRKILSL---------------------------D-AKNYHAWSHRQWVLRTLGGWEDE  161 (320)
T ss_pred             HHHHHHHHHcCchhhHHHHHHHHHHHHh---------------------------C-cccHHHHHHHHHHHHHhhhHHHH
Confidence            7665555555542  4556666666543                           2 34667888888888888999999


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhc---CCh----hHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHH
Q 044256          182 IALFDSMARKGFMPDVFSYSVLINGYCKN---FNV----EEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL  254 (363)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  254 (363)
                      ++.++++++.+.. +...|+.....+.+.   |..    ++.+....+++...             +-+...|+.+...+
T Consensus       162 L~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-------------P~N~SaW~Yl~~ll  227 (320)
T PLN02789        162 LEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-------------PRNESPWRYLRGLF  227 (320)
T ss_pred             HHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-------------CCCcCHHHHHHHHH
Confidence            9999999887543 566676665555443   222    34444444444332             34566787777777


Q ss_pred             Hhc----CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh
Q 044256          255 CKN----GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK  291 (363)
Q Consensus       255 ~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  291 (363)
                      ...    ++..+|...+.+....+ +.+......|+..|+.
T Consensus       228 ~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        228 KDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             hcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            663    34456777777766654 4556677777777764

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

Probab=98.97  E-value=7.9e-06  Score=69.24  Aligned_cols=326  Identities=14%  Similarity=0.057  Sum_probs=190.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-------------------------
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCR-------------------------   56 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------------------   56 (363)
                      |..++|+..++     |..+.+..+...-...+-+.|++++|+++|+.+.+.+..                         
T Consensus        93 nk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v  167 (652)
T KOG2376|consen   93 NKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSV  167 (652)
T ss_pred             ccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhc
Confidence            34556666555     445545667777778888999999999999998654321                         


Q ss_pred             C--CcccHHHHH---HHHHhcCChhHHHHHHHHHHhccCC----C---CCccCCchh-hHHHHHHHHHhcCCHHHHHHHH
Q 044256           57 P--NVTTCDTLI---TGLRRTGNMNLTLKLHQEMVNGMGD----F---GGIYKPNVF-CYGSLIDGLCKDRLVDQTKDLF  123 (363)
Q Consensus        57 ~--~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~----~---~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~  123 (363)
                      |  ...+|..+.   ..++..|++.+|+++++.....+..    -   +..+.-... +-..|.-.+...|+.++|..+|
T Consensus       168 ~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy  247 (652)
T KOG2376|consen  168 PEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIY  247 (652)
T ss_pred             cCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence            0  122443333   3456789999999999988322110    0   000111111 2234455677889999999999


Q ss_pred             HHHHHcCCCcch----------hhhccCChH--------------HHHHHHH-------------------------HHH
Q 044256          124 MEMKDKGINANT----------LLCKKTKLV--------------EANRLLE-------------------------LMM  154 (363)
Q Consensus       124 ~~~~~~~~~~~~----------~~~~~~~~~--------------~a~~~~~-------------------------~~~  154 (363)
                      ...++.......          ++....++-              .+...+.                         +..
T Consensus       248 ~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r  327 (652)
T KOG2376|consen  248 VDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVR  327 (652)
T ss_pred             HHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            999887654332          000000000              0000000                         000


Q ss_pred             H--cCCCCc--hhhHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH
Q 044256          155 Q--RGLNPV--IFTYTPLLNGYCL--VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       155 ~--~~~~~~--~~~~~~li~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (363)
                      +  ...++.  ...+.+++..+.+  ...+..+..++...-+....-+..+.-.++......|+++.|..++.....   
T Consensus       328 ~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~---  404 (652)
T KOG2376|consen  328 ELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLE---  404 (652)
T ss_pred             HHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---
Confidence            0  001111  2233444443332  224666777776666553222344555667777889999999998885441   


Q ss_pred             HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc------cCcchHHHHHHHHHHHHhcCChHHHHHHH
Q 044256          229 KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS------NCELFVEIFNSLIRGCCKFGIFEIASELF  302 (363)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~~~~~~a~~~~  302 (363)
                       .....+.+.+..|.  +..++...+.+.++.+.|..++.+.+..      +-..-..++..+...-.+.|+.++|..++
T Consensus       405 -~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~l  481 (652)
T KOG2376|consen  405 -SWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLL  481 (652)
T ss_pred             -hhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHH
Confidence             22233333344444  4556677777777777777777666533      10111223344444455779999999999


Q ss_pred             HHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHH
Q 044256          303 NKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSM  340 (363)
Q Consensus       303 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  340 (363)
                      +++.+.. ++|..+...++.+|++. +++.|..+-+.+
T Consensus       482 eel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  482 EELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            9999874 77999999999999875 467777765443

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

Probab=98.94  E-value=1.9e-06  Score=79.73  Aligned_cols=211  Identities=15%  Similarity=0.073  Sum_probs=127.1

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 044256           97 KPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK-GINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLV  175 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (363)
                      |-+...|-..|......++.+.|.++.++.+.. ++...                        .--...|.++++.-..-
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REe------------------------eEKLNiWiA~lNlEn~y 1510 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREE------------------------EEKLNIWIAYLNLENAY 1510 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchh------------------------HHHHHHHHHHHhHHHhh
Confidence            344566667777777777777777777766653 11100                        00123455556555556


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHH
Q 044256          176 GKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLC  255 (363)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~  255 (363)
                      |.-+...++|+++.+.  ...-..|..|...|.+.+.+++|.++++.|.+.-             ......|...+..+.
T Consensus      1511 G~eesl~kVFeRAcqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-------------~q~~~vW~~y~~fLl 1575 (1710)
T KOG1070|consen 1511 GTEESLKKVFERACQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-------------GQTRKVWIMYADFLL 1575 (1710)
T ss_pred             CcHHHHHHHHHHHHHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-------------cchhhHHHHHHHHHh
Confidence            6666667777766654  1123456666667777777777777777766542             234456666666666


Q ss_pred             hcCCHHHHHHHHHHHHhccCcc--hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH
Q 044256          256 KNGHVLEVMELFPTLEISNCEL--FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE  333 (363)
Q Consensus       256 ~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  333 (363)
                      ++.+-+.|..++.++.+.- |-  ......-.+..-.+.|+.+++..+|+...... +.....|+.+|+.-.++|+.+.+
T Consensus      1576 ~~ne~~aa~~lL~rAL~~l-Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~v 1653 (1710)
T KOG1070|consen 1576 RQNEAEAARELLKRALKSL-PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYV 1653 (1710)
T ss_pred             cccHHHHHHHHHHHHHhhc-chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHH
Confidence            7666667777776665541 21  33444455555566677777777777666552 44566677777777777777777


Q ss_pred             HHHHHHHHHcCCCCC
Q 044256          334 NYLLLSMEENGCALD  348 (363)
Q Consensus       334 ~~~~~~m~~~g~~p~  348 (363)
                      ..+|++....++.|-
T Consensus      1654 R~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1654 RDLFERVIELKLSIK 1668 (1710)
T ss_pred             HHHHHHHHhcCCChh
Confidence            777777776655544

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

Probab=98.93  E-value=4.9e-07  Score=68.69  Aligned_cols=161  Identities=12%  Similarity=0.066  Sum_probs=117.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH
Q 044256          169 LNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN  248 (363)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (363)
                      +..|...|+++.+....+.+...    . .       .+...++.+++...++..++.+             +.+...|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~-~-------~~~~~~~~~~~i~~l~~~L~~~-------------P~~~~~w~   77 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L-H-------QFASQQTPEAQLQALQDKIRAN-------------PQNSEQWA   77 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c-c-------cccCchhHHHHHHHHHHHHHHC-------------CCCHHHHH
Confidence            45678888888876554332221    1 0       1223556677776666666554             45677888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHH-HhcCC--hHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          249 IFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGC-CKFGI--FEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       249 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      .+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|.+++++..+.+ +-+...+..+...+.
T Consensus        78 ~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~  155 (198)
T PRK10370         78 LLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAF  155 (198)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHH
Confidence            88899999999999999999998876 66788888888864 67777  599999999999875 447888888888999


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          326 KEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      ..|++++|...|+++++. .+|+..- ..+|.+
T Consensus       156 ~~g~~~~Ai~~~~~aL~l-~~~~~~r-~~~i~~  186 (198)
T PRK10370        156 MQADYAQAIELWQKVLDL-NSPRVNR-TQLVES  186 (198)
T ss_pred             HcCCHHHHHHHHHHHHhh-CCCCccH-HHHHHH
Confidence            999999999999999885 3444443 333354

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

Probab=98.93  E-value=3e-07  Score=77.32  Aligned_cols=202  Identities=14%  Similarity=-0.016  Sum_probs=152.3

Q ss_pred             hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 044256          136 LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE  215 (363)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  215 (363)
                      .+.+.|+..+|.-.|+..++.+ |-+...|..|....+..++-..|+..+++..+.. +-+......|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            4456677777777777777664 4456777777777777777777887777777763 2245556666666777777777


Q ss_pred             HHHHHHHHHHhhH-----------------------------HHHHHH-hHhcCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 044256          216 AMNVSREMILNGF-----------------------------KKIFNE-MKLCNVVPETFTCNIFIDGLCKNGHVLEVME  265 (363)
Q Consensus       216 a~~~~~~~~~~~~-----------------------------~~~~~~-~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  265 (363)
                      |+..+++-+...+                             ..+|-+ ....+..+|+.+...|.-.|--.|.+++|..
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            7777766644332                             233333 3445545777788888888888999999999


Q ss_pred             HHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc-HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          266 LFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD-VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .|+.+.... |-|..+||-|...++...+.++|+..|++.++.  .|+ +.+...|.-+|...|.+++|.+.|-+.+.
T Consensus       452 cf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  452 CFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            999999876 778899999999999999999999999999987  454 55666778889999999999998887654

>PF12854 PPR_1: PPR repeat

Probab=98.92  E-value=1.6e-09  Score=55.77  Aligned_cols=32  Identities=34%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             CCCccHHHHHHHHHHHHccCChhHHHHHHHHH
Q 044256          309 NLVADVVAYNILIHALGKEGQIKKENYLLLSM  340 (363)
Q Consensus       309 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  340 (363)
                      |+.||..+|+++|.+|++.|++++|.++|++|
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            45666666666666666666666666666665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.91  E-value=1.3e-05  Score=76.71  Aligned_cols=305  Identities=9%  Similarity=-0.021  Sum_probs=192.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCc--ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCcc
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCR------PNV--TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIY   96 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~------~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   96 (363)
                      .........+...|++++|..++......--.      +..  .....+...+...|++++|...++......      .
T Consensus       410 ~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~------~  483 (903)
T PRK04841        410 RLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAEL------P  483 (903)
T ss_pred             chHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC------C
Confidence            33344555567789999999999887543101      111  112223345567899999999999887632      1


Q ss_pred             CCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------------hhhccCChHHHHHHHHHHHHc---
Q 044256           97 KPN----VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------------LLCKKTKLVEANRLLELMMQR---  156 (363)
Q Consensus        97 ~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~---  156 (363)
                      ..+    ....+.+...+...|+++.|...+++..........             .+...|++++|...+++....   
T Consensus       484 ~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~  563 (903)
T PRK04841        484 LTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEE  563 (903)
T ss_pred             CccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            111    234456667778899999999999888653211111             456789999999988876542   


Q ss_pred             -CCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH
Q 044256          157 -GLN--P-VIFTYTPLLNGYCLVGKVNVAIALFDSMARK--GFMP--DVFSYSVLINGYCKNFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       157 -~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (363)
                       +..  + ....+..+...+...|++++|...+.+....  ...+  ....+..+...+...|++++|...+....... 
T Consensus       564 ~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~-  642 (903)
T PRK04841        564 QHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLL-  642 (903)
T ss_pred             hccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-
Confidence             211  1 1233445556677789999999999876543  1112  23344445667778999999998887764321 


Q ss_pred             HHHHHHhHhcCCCCCh-HH-HHHHHHHHHhcCCHHHHHHHHHHHHhccCcch---HHHHHHHHHHHHhcCChHHHHHHHH
Q 044256          229 KKIFNEMKLCNVVPET-FT-CNIFIDGLCKNGHVLEVMELFPTLEISNCELF---VEIFNSLIRGCCKFGIFEIASELFN  303 (363)
Q Consensus       229 ~~~~~~~~~~~~~~~~-~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~  303 (363)
                          ..   .+..... .. ....+..+...|+.+.|...+...........   ...+..+..++...|+.++|...++
T Consensus       643 ----~~---~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~  715 (903)
T PRK04841        643 ----GN---GRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILE  715 (903)
T ss_pred             ----hc---ccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                11   1111110 00 11122444567899999998877654321111   1124566777889999999999999


Q ss_pred             HhhhC----CCCcc-HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          304 KLSCK----NLVAD-VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       304 ~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +....    |..++ ..+...+..++.+.|+.++|...+.+..+.
T Consensus       716 ~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        716 ELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            87653    32222 345566667888999999999999998875

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.91  E-value=1.4e-05  Score=63.37  Aligned_cols=287  Identities=8%  Similarity=-0.004  Sum_probs=197.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCccc-HHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTT-CDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~   79 (363)
                      +|++.+|+.-|..+.+.  .|.+-.++..-...|...|+...|+.=+.+.++.  +||-.. -..-...+.+.|.+++|.
T Consensus        51 ~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~  126 (504)
T KOG0624|consen   51 RGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAE  126 (504)
T ss_pred             hhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHH
Confidence            46788888888888875  6645555566667788999999999999998876  777432 223345678999999999


Q ss_pred             HHHHHHHhccCCCCCc------cCCchhh--HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------hhhccCC
Q 044256           80 KLHQEMVNGMGDFGGI------YKPNVFC--YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------LLCKKTK  142 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~------~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~  142 (363)
                      .-|+..++....-+..      ..+....  ....+..+.-.|+...|+.....+++.  .|+.         .+...|.
T Consensus       127 ~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi--~~Wda~l~~~Rakc~i~~~e  204 (504)
T KOG0624|consen  127 ADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI--QPWDASLRQARAKCYIAEGE  204 (504)
T ss_pred             HHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc--CcchhHHHHHHHHHHHhcCc
Confidence            9999999865211000      0111111  223345566789999999999999875  4443         6778899


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHH-------------HHHHh
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLI-------------NGYCK  209 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-------------~~~~~  209 (363)
                      +..|..-++...+.. ..++.++.-+-..+...|+.+.++...++..+.  .||....-..-             .....
T Consensus       205 ~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie  281 (504)
T KOG0624|consen  205 PKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIE  281 (504)
T ss_pred             HHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999988888776654 345566666777888899999999999988876  56654322111             11223


Q ss_pred             cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHH
Q 044256          210 NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE---TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLI  286 (363)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  286 (363)
                      .++|.+++...+..++..            ....   ...+..+-.++...+++.+|++...++.... +.|+.++..-.
T Consensus       282 ~~~~t~cle~ge~vlk~e------------p~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRA  348 (504)
T KOG0624|consen  282 EKHWTECLEAGEKVLKNE------------PEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRA  348 (504)
T ss_pred             hhhHHHHHHHHHHHHhcC------------CcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHH
Confidence            444555544444433322            1111   2234445566777899999999999998764 55688888888


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCC
Q 044256          287 RGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       287 ~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .+|.-..+++.|+.-|+...+.+
T Consensus       349 eA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhcC
Confidence            99999999999999999888764

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

Probab=98.90  E-value=1.5e-07  Score=71.47  Aligned_cols=119  Identities=16%  Similarity=0.101  Sum_probs=97.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHH-HhcCC--hhHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL-RRTGN--MNLT   78 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a   78 (363)
                      ++.+++...++..++.  .|.+...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        53 ~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         53 QTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             hhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            4567778888888776  77789999999999999999999999999998874 34566777777764 56676  5899


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      .+++++..+..       +.+..++..+...+.+.|++++|...|+++.+..
T Consensus       130 ~~~l~~al~~d-------P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALD-------ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhC-------CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            99999999875       5577888889999999999999999999988753

>PLN02789 farnesyltranstransferase

Probab=98.90  E-value=6.3e-06  Score=67.38  Aligned_cols=203  Identities=11%  Similarity=0.038  Sum_probs=137.7

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCCh--hHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG-NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNM--NLT   78 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~--~~a   78 (363)
                      ++.++|+.+.+.+++.  .|.+..+|+....++...| ++++++..++++.+.+ +.+..+|+....++.+.++.  +++
T Consensus        51 e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         51 ERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHH
Confidence            4567788888888876  7767788888888888888 6899999999999875 44566788776666666653  678


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      +.+++.+.+..       +.|..+|+....++.+.|+++++++.++++++.++..                         
T Consensus       128 l~~~~kal~~d-------pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N-------------------------  175 (320)
T PLN02789        128 LEFTRKILSLD-------AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRN-------------------------  175 (320)
T ss_pred             HHHHHHHHHhC-------cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCc-------------------------
Confidence            99999999875       6788999999999999999999999999998865432                         


Q ss_pred             CCchhhHHHHHHHHHhc---CC----HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc----CChhHHHHHHHHHHHhh
Q 044256          159 NPVIFTYTPLLNGYCLV---GK----VNVAIALFDSMARKGFMPDVFSYSVLINGYCKN----FNVEEAMNVSREMILNG  227 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~---~~----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~  227 (363)
                         ...|+.....+.+.   |.    .+.......+++... +-+...|+.+...+...    +...+|...+.+....+
T Consensus       176 ---~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        176 ---NSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             ---hhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence               33444433333332   21    234555555555542 33566777776666652    33345555544433221


Q ss_pred             HHHHHHHhHhcCCCCChHHHHHHHHHHHh
Q 044256          228 FKKIFNEMKLCNVVPETFTCNIFIDGLCK  256 (363)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~  256 (363)
                                   +.+......|++.|+.
T Consensus       252 -------------~~s~~al~~l~d~~~~  267 (320)
T PLN02789        252 -------------SNHVFALSDLLDLLCE  267 (320)
T ss_pred             -------------CCcHHHHHHHHHHHHh
Confidence                         2345566667777664

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.89  E-value=6.6e-07  Score=70.72  Aligned_cols=166  Identities=17%  Similarity=0.012  Sum_probs=123.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-H---hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD-V---FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      ....+..+...+...|+++.|...|+++....  |+ .   ..+..+..++.+.|++++|...++++.+..         
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~---------  100 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH---------  100 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---------
Confidence            45567778888899999999999999987763  32 2   456777888999999999999988887654         


Q ss_pred             hcCCCCChH----HHHHHHHHHHhc--------CCHHHHHHHHHHHHhccCcchHHHH-----------------HHHHH
Q 044256          237 LCNVVPETF----TCNIFIDGLCKN--------GHVLEVMELFPTLEISNCELFVEIF-----------------NSLIR  287 (363)
Q Consensus       237 ~~~~~~~~~----~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~  287 (363)
                           |+..    ++..+..++...        |+.++|.+.++.+.... +-+...+                 ..+..
T Consensus       101 -----p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~~a~  174 (235)
T TIGR03302       101 -----PNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDYLRNRLAGKELYVAR  174 (235)
T ss_pred             -----cCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 3221    344444455443        77899999999988763 2222222                 13456


Q ss_pred             HHHhcCChHHHHHHHHHhhhCC--CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          288 GCCKFGIFEIASELFNKLSCKN--LVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       288 ~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .|.+.|++.+|...++......  -+.....+..+..++.+.|++++|..+++.+...
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6788999999999999998762  1224678889999999999999999999988764

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).

>PF12854 PPR_1: PPR repeat

Probab=98.88  E-value=3e-09  Score=54.70  Aligned_cols=32  Identities=47%  Similarity=0.981  Sum_probs=20.5

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          157 GLNPVIFTYTPLLNGYCLVGKVNVAIALFDSM  188 (363)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (363)
                      |+.||..||++||.+|++.|++++|.++|++|
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            45666666666666666666666666666655

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.87  E-value=1.1e-06  Score=69.58  Aligned_cols=184  Identities=11%  Similarity=0.030  Sum_probs=129.4

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           22 LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        22 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      ..+..+..+...+...|++++|...|+++...  .|+.    .++..+..++...|++++|...++.+.+..       +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-------p  101 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-------P  101 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-------c
Confidence            36778888999999999999999999999876  3432    366778889999999999999999999854       2


Q ss_pred             Cchh---hHHHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHH
Q 044256           98 PNVF---CYGSLIDGLCKD--------RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYT  166 (363)
Q Consensus        98 ~~~~---~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (363)
                      .+..   ++..+..++...        |+.+.|.+.++.+.+..+....       ...+...+..+...    ......
T Consensus       102 ~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~-------~~~a~~~~~~~~~~----~~~~~~  170 (235)
T TIGR03302       102 NHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEY-------APDAKKRMDYLRNR----LAGKEL  170 (235)
T ss_pred             CCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChh-------HHHHHHHHHHHHHH----HHHHHH
Confidence            2222   455555556554        6788889998888875433211       11111111111100    001122


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC--CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARKGF--MPDVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                      .+...+.+.|+++.|...++...+...  +.....+..+..++...|++++|..+++.+..
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456778899999999999999887621  22356788899999999999999988777654

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).

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.85  E-value=1.8e-07  Score=67.24  Aligned_cols=105  Identities=8%  Similarity=-0.049  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      .+..+...+...|++++|...|+.+.... +.+...|..+..++...|++++|...|+.....+ +.+...+..+..++.
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~  103 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            35556778889999999999999999886 7788999999999999999999999999999875 568899999999999


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 044256          326 KEGQIKKENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      ..|++++|...|+..++  +.|+...+..
T Consensus       104 ~~g~~~eAi~~~~~Al~--~~p~~~~~~~  130 (144)
T PRK15359        104 MMGEPGLAREAFQTAIK--MSYADASWSE  130 (144)
T ss_pred             HcCCHHHHHHHHHHHHH--hCCCChHHHH
Confidence            99999999999999998  5676555443

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

Probab=98.83  E-value=6.4e-06  Score=75.22  Aligned_cols=67  Identities=10%  Similarity=-0.054  Sum_probs=49.1

Q ss_pred             HHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHH
Q 044256           13 SFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus        13 ~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      +..-.+..|.+...|..|+..+...+++++|.++.+...+.  .|+.. .|-.+...+.+.++.+.+..+
T Consensus        20 r~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv   87 (906)
T PRK14720         20 RADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL   87 (906)
T ss_pred             hcccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh
Confidence            34445567878999999999999999999999999977766  55544 344444466677776666555

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.81  E-value=4.1e-07  Score=65.35  Aligned_cols=109  Identities=7%  Similarity=-0.164  Sum_probs=93.4

Q ss_pred             HHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHh
Q 044256            8 LMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVN   87 (363)
Q Consensus         8 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   87 (363)
                      ..+|+...+.  .|   ..+..+...+...|++++|...|+...... +.+...|..+..++...|++++|...|+....
T Consensus        13 ~~~~~~al~~--~p---~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLSV--DP---ETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHHc--CH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3566777765  45   346677888999999999999999998875 45777889999999999999999999999998


Q ss_pred             ccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           88 GMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ..       +.+...+..+..++...|++++|...|+...+.
T Consensus        87 l~-------p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         87 LD-------ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cC-------CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            65       668899999999999999999999999998875

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.81  E-value=8.6e-05  Score=66.29  Aligned_cols=178  Identities=16%  Similarity=0.220  Sum_probs=113.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHH--HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKG--FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      +++..|.+..+.+.+.  .| + ..|..++.+  +.+.|+.++|..+++.....+.. |..|...+-.+|...++.++|.
T Consensus        23 ~qfkkal~~~~kllkk--~P-n-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKK--HP-N-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             HHHHHHHHHHHHHHHH--CC-C-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            5778888888888876  55 3 223334444  36788888888888877665433 6778888888888889999999


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC--------------cch------
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK----GIN--------------ANT------  135 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--------------~~~------  135 (363)
                      .+|++..+.        -|+......+..+|+|.+++.+-.++--++-+.    ...              |+.      
T Consensus        98 ~~Ye~~~~~--------~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   98 HLYERANQK--------YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             HHHHHHHhh--------CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchh
Confidence            999988874        466666666777777776665433332222221    100              000      


Q ss_pred             -----------------------------hhhccCChHHHHHHHHH-HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 044256          136 -----------------------------LLCKKTKLVEANRLLEL-MMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALF  185 (363)
Q Consensus       136 -----------------------------~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  185 (363)
                                                   ++...+.+++|..++.. ..+.-.+.+...-+.-+..+...+++.+..++-
T Consensus       170 l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence                                         33456667777776632 222222333334445567777788888888888


Q ss_pred             HHHHHcC
Q 044256          186 DSMARKG  192 (363)
Q Consensus       186 ~~~~~~~  192 (363)
                      .++...|
T Consensus       250 ~~Ll~k~  256 (932)
T KOG2053|consen  250 SRLLEKG  256 (932)
T ss_pred             HHHHHhC
Confidence            8887775

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.79  E-value=4e-05  Score=73.34  Aligned_cols=302  Identities=10%  Similarity=-0.057  Sum_probs=181.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc--hhhHHHHHHHHH
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN--VFCYGSLIDGLC  111 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~~~~~~ll~~~~  111 (363)
                      +...|++..+..+++.+.......+..........+...|+++++...+......-...+....+.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            445566666666665542211112222333445556678899999999988765321000000111  122223344566


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCcch------------hhhccCChHHHHHHHHHHHHcCC---CC--chhhHHHHHHHHHh
Q 044256          112 KDRLVDQTKDLFMEMKDKGINANT------------LLCKKTKLVEANRLLELMMQRGL---NP--VIFTYTPLLNGYCL  174 (363)
Q Consensus       112 ~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~li~~~~~  174 (363)
                      ..|+++.|...+++........+.            .+...|++++|...+.......-   .+  ...++..+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            889999999999998763221111            44578999999999888764311   11  12345566777888


Q ss_pred             cCCHHHHHHHHHHHHHc----CCC--C-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHH
Q 044256          175 VGKVNVAIALFDSMARK----GFM--P-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTC  247 (363)
Q Consensus       175 ~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (363)
                      .|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+.....     .   ..+.......+
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~-----~---~~~~~~~~~~~  615 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVL-----S---NYQPQQQLQCL  615 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhh-----h---ccCchHHHHHH
Confidence            99999999998876543    211  1 22334455556777899999998887765321     1   11111123345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcc--CcchHH--H--HHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc---HHHHH
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTLEISN--CELFVE--I--FNSLIRGCCKFGIFEIASELFNKLSCKNLVAD---VVAYN  318 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~--~--~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~  318 (363)
                      ..+...+...|+.+.|.+.+.......  ......  .  ....+..+...|+.+.|.+.+...........   ...+.
T Consensus       616 ~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~  695 (903)
T PRK04841        616 AMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWR  695 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHH
Confidence            556677888999999999998875431  111110  1  11122445568999999999877654321111   11234


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHc
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .+..++...|++++|...+++....
T Consensus       696 ~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        696 NIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5667788899999999999988764

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

Probab=98.79  E-value=2.4e-06  Score=65.06  Aligned_cols=161  Identities=17%  Similarity=0.071  Sum_probs=123.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChH
Q 044256          166 TPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETF  245 (363)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (363)
                      ..+-..+...|+-+....+....... .+.|............+.|++..|+..+++.....             ++|..
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-------------p~d~~  135 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-------------PTDWE  135 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-------------CCChh
Confidence            44556666777777777776664433 23355566668888888999999988888876654             57888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      +|+.+.-+|.+.|+++.|..-|.+..+.. +-++..++.+...+.-.|+++.|..++......+ .-|...-..+.....
T Consensus       136 ~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~  213 (257)
T COG5010         136 AWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVG  213 (257)
T ss_pred             hhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHh
Confidence            89998889999999999999998888774 5567778888888888899999999988887764 336777777888888


Q ss_pred             ccCChhHHHHHHHHHHH
Q 044256          326 KEGQIKKENYLLLSMEE  342 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~  342 (363)
                      ..|++++|..+...-..
T Consensus       214 ~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         214 LQGDFREAEDIAVQELL  230 (257)
T ss_pred             hcCChHHHHhhcccccc
Confidence            89999998887655443

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

Probab=98.77  E-value=9.6e-07  Score=73.01  Aligned_cols=134  Identities=14%  Similarity=0.041  Sum_probs=116.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      |++++|++.++.+...  .|.|+..+....+.+.+.++..+|.+.++++...  .|+ ...+-.+..++.+.|++++|+.
T Consensus       320 ~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         320 GQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             cccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHH
Confidence            6789999999999887  8878999999999999999999999999999987  566 4456678899999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHc
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      +++......       +.|+..|..|.++|...|+..++.....+...          ..|+++.|...+....+.
T Consensus       396 ~L~~~~~~~-------p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~----------~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         396 ILNRYLFND-------PEDPNGWDLLAQAYAELGNRAEALLARAEGYA----------LAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHhhcC-------CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH----------hCCCHHHHHHHHHHHHHh
Confidence            999998875       78899999999999999999999988887653          477888888888777665

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

Probab=98.76  E-value=1.5e-06  Score=75.20  Aligned_cols=236  Identities=14%  Similarity=0.082  Sum_probs=167.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      --..-..+...+...|-...|+.+|+++..         |..+|.+|...|+..+|..+..+-.+        -+||+..
T Consensus       397 ~Wq~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~le--------k~~d~~l  459 (777)
T KOG1128|consen  397 IWQLQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELE--------KDPDPRL  459 (777)
T ss_pred             cchHHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhc--------CCCcchh
Confidence            444555677888889999999999988753         66788899999999999999888887        2789999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKG-INANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVA  181 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  181 (363)
                      |..+.+.....--+++|.++.+...... ........+.++++++.+.|+.-.+.. +....+|..+.-+..+.++++.|
T Consensus       460 yc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  460 YCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             HHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHH
Confidence            9999988888888899999888765431 111112344678888888887766654 34456777777777788888888


Q ss_pred             HHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          182 IALFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       182 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      .+.|......  .| +...||.+-.+|.+.++-.+|...+.+..+-.             .-+...|...+....+.|.+
T Consensus       539 v~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-------------~~~w~iWENymlvsvdvge~  603 (777)
T KOG1128|consen  539 VKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-------------YQHWQIWENYMLVSVDVGEF  603 (777)
T ss_pred             HHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-------------CCCCeeeechhhhhhhcccH
Confidence            8888777665  34 44578888888888888888877766665432             23445666667777788888


Q ss_pred             HHHHHHHHHHHhccC-cchHHHHHHHHHHHHh
Q 044256          261 LEVMELFPTLEISNC-ELFVEIFNSLIRGCCK  291 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~  291 (363)
                      ++|++.+..+..... ..|..+...++....+
T Consensus       604 eda~~A~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  604 EDAIKAYHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHHHHHHHHHhhhhcccchhhHHHHHHHHh
Confidence            888888877754421 1244455555544443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=1.4e-05  Score=72.07  Aligned_cols=231  Identities=8%  Similarity=0.091  Sum_probs=159.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHH-HHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH--cCCCCchhhHHHHHHHHHhc
Q 044256           99 NVFCYGSLIDGLCKDRLVDQT-KDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ--RGLNPVIFTYTPLLNGYCLV  175 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~  175 (363)
                      ++.....+=.+.+.-|..++| .+++.+..+       ++...+....+...+-++..  ...+.+...+..|.....+.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~   99 (694)
T PRK15179         27 GPTILDLLEAALAEPGESEEAGRELLQQARQ-------VLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAA   99 (694)
T ss_pred             CcHHHhHHHHHhcCcccchhHHHHHHHHHHH-------HHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHc
Confidence            344455555566777777666 345555443       22233334443333333322  23456678888899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC-hHHHHHHHHH
Q 044256          176 GKVNVAIALFDSMARKGFMPD-VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE-TFTCNIFIDG  253 (363)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~  253 (363)
                      |..++|+.+++...+.  .|+ ......+...+.+.+++++|+...++.....              |+ ......+..+
T Consensus       100 g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--------------p~~~~~~~~~a~~  163 (694)
T PRK15179        100 HRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--------------SSSAREILLEAKS  163 (694)
T ss_pred             CCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--------------CCCHHHHHHHHHH
Confidence            9999999999999887  454 4566778888999999999998888887765              54 4556677778


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH
Q 044256          254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE  333 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  333 (363)
                      +...|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.. .+....|+.++.      +...-
T Consensus       164 l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------~~~~~  235 (694)
T PRK15179        164 WDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------DLNAD  235 (694)
T ss_pred             HHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------HHHHH
Confidence            889999999999999999843 5568899999999999999999999999998763 455666665543      23334


Q ss_pred             HHHHHHHHHc----CCCCCHHHHHHHHHHHh
Q 044256          334 NYLLLSMEEN----GCALDVDTFNTLMISFL  360 (363)
Q Consensus       334 ~~~~~~m~~~----g~~p~~~~~~~ll~~~~  360 (363)
                      ...++++.-.    |.......+...|.-|.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (694)
T PRK15179        236 LAALRRLGVEGDGRDVPVSILVLEKMLQEIG  266 (694)
T ss_pred             HHHHHHcCcccccCCCceeeeeHHHHHHHHh
Confidence            5556665433    34445555555555543

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

Probab=98.76  E-value=5.4e-07  Score=64.39  Aligned_cols=112  Identities=15%  Similarity=0.081  Sum_probs=94.7

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      ......+...+...|++++|...++.+...+ +.+...+..+...+...|++++|...++.....+ +.+...+..+..+
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            3455667778889999999999999998876 6688899999999999999999999999998875 5578888888899


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      +...|++++|...|++..+  +.|+...+..+...+
T Consensus        95 ~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~  128 (135)
T TIGR02552        95 LLALGEPESALKALDLAIE--ICGENPEYSELKERA  128 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHH--hccccchHHHHHHHH
Confidence            9999999999999999998  567777766555443

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

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

Probab=98.75  E-value=9.6e-07  Score=67.14  Aligned_cols=165  Identities=12%  Similarity=0.015  Sum_probs=121.4

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.|..+ ..+-..+...|+-+....+........ +.|....+.++....+.|++..|...+++.....       ++|
T Consensus        63 ~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-------p~d  133 (257)
T COG5010          63 NPEDLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-------PTD  133 (257)
T ss_pred             CcchHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-------CCC
Confidence            6656666 667777888888888888877755431 3344556668888899999999999999998865       788


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ...|+.+.-+|.+.|+++.|..-|.+..+..+                            -+...++.+.-.+.-.|+.+
T Consensus       134 ~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~----------------------------~~p~~~nNlgms~~L~gd~~  185 (257)
T COG5010         134 WEAWNLLGAALDQLGRFDEARRAYRQALELAP----------------------------NEPSIANNLGMSLLLRGDLE  185 (257)
T ss_pred             hhhhhHHHHHHHHccChhHHHHHHHHHHHhcc----------------------------CCchhhhhHHHHHHHcCCHH
Confidence            99999999999999999999999999887422                            23345666666666777777


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          180 VAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       180 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      .|..++......+. -|...-..+.......|++++|..+...
T Consensus       186 ~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         186 DAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            77777777666532 2555666666667777777777766544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.72  E-value=0.00011  Score=61.99  Aligned_cols=299  Identities=12%  Similarity=0.036  Sum_probs=194.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc-hhhHHHHHHH
Q 044256           31 IKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN-VFCYGSLIDG  109 (363)
Q Consensus        31 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~  109 (363)
                      ..+....|+++.|+..|.+.+... ++|...|..-..+|.+.|++++|++=-.+.++        +.|+ ...|+....+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--------l~p~w~kgy~r~Gaa   79 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRR--------LNPDWAKGYSRKGAA   79 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHh--------cCCchhhHHHHhHHH
Confidence            345677899999999999988775 55888899999999999999999988877777        4565 5679999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcch------------------------------------------------------
Q 044256          110 LCKDRLVDQTKDLFMEMKDKGINANT------------------------------------------------------  135 (363)
Q Consensus       110 ~~~~~~~~~a~~~~~~~~~~~~~~~~------------------------------------------------------  135 (363)
                      +.-.|++++|+..|.+-++....-..                                                      
T Consensus        80 ~~~lg~~~eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p  159 (539)
T KOG0548|consen   80 LFGLGDYEEAILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNP  159 (539)
T ss_pred             HHhcccHHHHHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCc
Confidence            99999999999999887664322111                                                      


Q ss_pred             ----hhhccCChHHHHHHHHHHH-----HcC-------CCC---------c-------------hhhHHHHHHHHHhcCC
Q 044256          136 ----LLCKKTKLVEANRLLELMM-----QRG-------LNP---------V-------------IFTYTPLLNGYCLVGK  177 (363)
Q Consensus       136 ----~~~~~~~~~~a~~~~~~~~-----~~~-------~~~---------~-------------~~~~~~li~~~~~~~~  177 (363)
                          .+........+...+....     ..+       ..|         .             ..-...+.++.-+..+
T Consensus       160 ~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~  239 (539)
T KOG0548|consen  160 TSLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKD  239 (539)
T ss_pred             HhhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhh
Confidence                0000001111111111000     000       001         0             0112334555556667


Q ss_pred             HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      ++.+++.+....+..  -+..-++....+|...|.+..+...-....+.|.+...+.-.      =...+..+..+|.+.
T Consensus       240 f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~kl------Iak~~~r~g~a~~k~  311 (539)
T KOG0548|consen  240 FETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKL------IAKALARLGNAYTKR  311 (539)
T ss_pred             HHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHH------HHHHHHHhhhhhhhH
Confidence            777777777766653  344445556667777777777776666655554211100000      011222244466667


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHH-------------------------HHHHHHHHhcCChHHHHHHHHHhhhCCCCc
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIF-------------------------NSLIRGCCKFGIFEIASELFNKLSCKNLVA  312 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  312 (363)
                      ++++.++..|.+.......|+...-                         ..=...+.+.|++..|.+.|.+++... +-
T Consensus       312 ~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~  390 (539)
T KOG0548|consen  312 EDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PE  390 (539)
T ss_pred             HhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-Cc
Confidence            7888888888876654434432221                         112345678899999999999999886 66


Q ss_pred             cHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          313 DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       313 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      |...|....-+|.+.|.+..|++-.+..++  +.|+.
T Consensus       391 Da~lYsNRAac~~kL~~~~~aL~Da~~~ie--L~p~~  425 (539)
T KOG0548|consen  391 DARLYSNRAACYLKLGEYPEALKDAKKCIE--LDPNF  425 (539)
T ss_pred             hhHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCchH
Confidence            899999999999999999999998888887  35554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.69  E-value=2.7e-05  Score=68.93  Aligned_cols=54  Identities=20%  Similarity=0.068  Sum_probs=30.1

Q ss_pred             HHHHHhcCChHHHHHHHHH--------hhh--CCCCccHHHHHHHHHHHHccCChhHHHHHHHH
Q 044256          286 IRGCCKFGIFEIASELFNK--------LSC--KNLVADVVAYNILIHALGKEGQIKKENYLLLS  339 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~--------~~~--~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  339 (363)
                      +..|-++|.+.+|+++--+        ++.  .....|+...+.-...++...++++|..++-.
T Consensus      1042 VmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ 1105 (1416)
T KOG3617|consen 1042 VMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCL 1105 (1416)
T ss_pred             HHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3456677777777664211        111  12234566666666666677777776665443

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

Probab=98.68  E-value=3.5e-05  Score=70.56  Aligned_cols=242  Identities=10%  Similarity=0.066  Sum_probs=159.9

Q ss_pred             CCCC-CcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 044256           54 GCRP-NVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN  132 (363)
Q Consensus        54 ~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  132 (363)
                      ++.| +...+..|+..+...+++++|.++.+...+..       +.....|-.+...+.+.++.+.+..+  .+.+.   
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-------P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~---   92 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEH-------KKSISALYISGILSLSRRPLNDSNLL--NLIDS---   92 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-------CcceehHHHHHHHHHhhcchhhhhhh--hhhhh---
Confidence            3444 35578899999999999999999999887743       33344555555577788887777766  43332   


Q ss_pred             cchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC
Q 044256          133 ANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFN  212 (363)
Q Consensus       133 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  212 (363)
                          .....++.-...+...+...  .-+...+..+..+|-+.|+.++|..+|+++.+.. +-|+.+.|.+...|... +
T Consensus        93 ----~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         93 ----FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             ----cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-h
Confidence                22334554445555555554  3455688889999999999999999999999986 44788899999989888 9


Q ss_pred             hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHh
Q 044256          213 VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS-NCELFVEIFNSLIRGCCK  291 (363)
Q Consensus       213 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~  291 (363)
                      .++|..++.+.+....       .......=...|.-++.  ....+++.-..+.+.+... +..--..++-.+-..|..
T Consensus       165 L~KA~~m~~KAV~~~i-------~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~  235 (906)
T PRK14720        165 KEKAITYLKKAIYRFI-------KKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKA  235 (906)
T ss_pred             HHHHHHHHHHHHHHHH-------hhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhh
Confidence            9999988877654321       00000000011111111  1123344444455554433 333344556666677888


Q ss_pred             cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          292 FGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       292 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      ..+++++..+++.+.+.. +.|.....-++.+|.
T Consensus       236 ~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        236 LEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             hhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            889999999999999875 446777777787776

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.68  E-value=6e-05  Score=60.21  Aligned_cols=320  Identities=10%  Similarity=0.065  Sum_probs=181.6

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----------C-CCcc---cH-----
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGC----------R-PNVT---TC-----   62 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----------~-~~~~---~~-----   62 (363)
                      |++++|...+..+.+. -.| +...+..|.-++.-.|.+.+|..+-.+..+..+          + .|..   ++     
T Consensus        71 gdY~~Al~~Y~~~~~~-~~~-~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~Lq  148 (557)
T KOG3785|consen   71 GDYEEALNVYTFLMNK-DDA-PAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQ  148 (557)
T ss_pred             ccHHHHHHHHHHHhcc-CCC-CcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHh
Confidence            7899999999988875 345 677787787777778888888776655432100          0 0111   11     


Q ss_pred             ------HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH-HHHHHHhcCCHHHHHHHHHHHHHcCCCcch
Q 044256           63 ------DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS-LIDGLCKDRLVDQTKDLFMEMKDKGINANT  135 (363)
Q Consensus        63 ------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  135 (363)
                            -+|.+.....-.+++|+++|.+.....        |+-...|. +.-+|.+..-++-+.++++-..+.-+....
T Consensus       149 D~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--------~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdSti  220 (557)
T KOG3785|consen  149 DTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--------PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTI  220 (557)
T ss_pred             hhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--------hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHH
Confidence                  112222222235678888888877643        44444443 333455555566666666555443221111


Q ss_pred             -------------------------------------------------------------------------hhhccCC
Q 044256          136 -------------------------------------------------------------------------LLCKKTK  142 (363)
Q Consensus       136 -------------------------------------------------------------------------~~~~~~~  142 (363)
                                                                                               .+.+.++
T Consensus       221 A~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~d  300 (557)
T KOG3785|consen  221 AKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQND  300 (557)
T ss_pred             HHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeeccccc
Confidence                                                                                     3456777


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHH-----HHhcCCHHHHHHHHHHHHHcCCCCcHh-HHHHHHHHHHhcCChhHH
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNG-----YCLVGKVNVAIALFDSMARKGFMPDVF-SYSVLINGYCKNFNVEEA  216 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~-----~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a  216 (363)
                      ..+|..+.+.+...  .|-......+..+     ........-|.+.|+-.-+++..-|+. --.++..++.-..++++.
T Consensus       301 VqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddV  378 (557)
T KOG3785|consen  301 VQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDV  378 (557)
T ss_pred             HHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHH
Confidence            77777776554321  2222222222222     222345667788887776665544433 233444555556677887


Q ss_pred             HHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHH-HHHHHHHHhcCCh
Q 044256          217 MNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIF-NSLIRGCCKFGIF  295 (363)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~  295 (363)
                      +-.+..+..--            ...|...+ .+.++++..|++.+|+++|-.+....++ |..+| ..|.++|.+++.+
T Consensus       379 l~YlnSi~sYF------------~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP  444 (557)
T KOG3785|consen  379 LTYLNSIESYF------------TNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKP  444 (557)
T ss_pred             HHHHHHHHHHh------------cCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCc
Confidence            76665553321            12233333 4678888888888888888777655444 34444 4556778888888


Q ss_pred             HHHHHHHHHhhhCCCCccHHHHHHH-HHHHHccCChhHHHHHHHHHHHcCCCCCHHHH
Q 044256          296 EIASELFNKLSCKNLVADVVAYNIL-IHALGKEGQIKKENYLLLSMEENGCALDVDTF  352 (363)
Q Consensus       296 ~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  352 (363)
                      +.|+.++-.+...   .+..+...+ ..-|.+.+.+--|-+.|+.+..  ..|+...|
T Consensus       445 ~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  445 QLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             hHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc--cCCCcccc
Confidence            8887776655432   233333333 3466777777777777777765  45665544

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

Probab=98.67  E-value=9.5e-07  Score=63.12  Aligned_cols=111  Identities=8%  Similarity=-0.056  Sum_probs=94.0

Q ss_pred             HHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           10 AFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      .|+.+.+.  .|.+......+...+...|++++|.+.|+.+...+ +.+...|..+..++...|++++|...++......
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            45666664  66566778888899999999999999999998865 4467788889999999999999999999998864


Q ss_pred             CCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           90 GDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        90 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                             +.+...+..+..++...|+++.|...|+...+..
T Consensus        82 -------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        82 -------PDDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             -------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence                   5677888888999999999999999999988753

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

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

Probab=98.62  E-value=0.00023  Score=60.20  Aligned_cols=111  Identities=10%  Similarity=0.041  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL-FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      -+|..++..-.+...+..|..+|.++.+.+..+ ++.++++++.-|| .++.+.|.++|+.-... +.-++.--...+.-
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~Yldf  444 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDF  444 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHH
Confidence            367777887778888999999999998887666 6778888888776 57888999999876654 23344555667777


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCH--HHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDV--DTFNTLMI  357 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~  357 (363)
                      +...++-..|..+|++.+..++.|+.  ..|..+|.
T Consensus       445 L~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~  480 (656)
T KOG1914|consen  445 LSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLE  480 (656)
T ss_pred             HHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHH
Confidence            77888888888888888887665553  45665554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=0.00015  Score=65.90  Aligned_cols=157  Identities=15%  Similarity=0.112  Sum_probs=84.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP  242 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (363)
                      ..|+.+..+-.+.|.+.+|++-|-+.      .|+..|..+++...+.|.+++-.+.+.-..+..            -.|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~------------~E~ 1166 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKV------------REP 1166 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhh------------cCc
Confidence            35666666666666666665554321      255566666666666666666655444332221            122


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      .  .=+.|+-+|++.++..+.+++..       .||..-...+.+-|...+.++.|.-+|..         +.-|..+..
T Consensus      1167 ~--id~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~ 1228 (1666)
T KOG0985|consen 1167 Y--IDSELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLAS 1228 (1666)
T ss_pred             c--chHHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHH
Confidence            2  22345666666666555444331       34444445555555555555555554443         333555666


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          323 ALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      .+...|+++.|...-++.      .+..||..+-.+|..
T Consensus      1229 TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd 1261 (1666)
T KOG0985|consen 1229 TLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVD 1261 (1666)
T ss_pred             HHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhc
Confidence            666667776666544333      345666666666654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=0.00025  Score=64.49  Aligned_cols=245  Identities=11%  Similarity=0.081  Sum_probs=130.3

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----  135 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  135 (363)
                      ..|..+..+-.+.|...+|.+-|-+            ..|+..|..++....+.|.|++-.+.+...++..-.|..    
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyik------------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eL 1172 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIK------------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSEL 1172 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHh------------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHH
Confidence            3456666666666666655554422            233445666666666666666666666555554433332    


Q ss_pred             --hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh
Q 044256          136 --LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNV  213 (363)
Q Consensus       136 --~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  213 (363)
                        ++.+.++..+...++       ..||......+.+-|...|.++.|.-+|...         ..|..|...+...|++
T Consensus      1173 i~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~Lgey 1236 (1666)
T KOG0985|consen 1173 IFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEY 1236 (1666)
T ss_pred             HHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHH
Confidence              344444444433333       1344445555555555555555555444322         2244444444444444


Q ss_pred             hHHHHHHHHHHHhhH------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHH
Q 044256          214 EEAMNVSREMILNGF------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEI  281 (363)
Q Consensus       214 ~~a~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  281 (363)
                      +.|.+.-++......            +--+.+|-..++.....-..-++..|...|-+++.+.+++...... ......
T Consensus      1237 Q~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgm 1315 (1666)
T KOG0985|consen 1237 QGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGM 1315 (1666)
T ss_pred             HHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHH
Confidence            444443333321110            0011122233344556667788889999999999999988766443 445667


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhC-CCC------ccHHHHHHHHHHHHccCChhHHH
Q 044256          282 FNSLIRGCCKFGIFEIASELFNKLSCK-NLV------ADVVAYNILIHALGKEGQIKKEN  334 (363)
Q Consensus       282 ~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~------~~~~~~~~li~~~~~~g~~~~a~  334 (363)
                      |+-|.-.|++- ++++..+.++..-.+ +++      -....|+-+.-.|.+-..+|.|.
T Consensus      1316 fTELaiLYsky-kp~km~EHl~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa 1374 (1666)
T KOG0985|consen 1316 FTELAILYSKY-KPEKMMEHLKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAA 1374 (1666)
T ss_pred             HHHHHHHHHhc-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            88887777765 345544444433221 111      13456777777777777666653

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

Probab=98.58  E-value=7e-05  Score=57.38  Aligned_cols=170  Identities=14%  Similarity=0.066  Sum_probs=121.4

Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHH
Q 044256          150 LELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFK  229 (363)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (363)
                      .+.+.......+......-...|+..|++++|.+......      +......=+..+.+..+++-|.+.+++|...   
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence            3444444334444444445567888999999999887622      3333444445567788889998888888654   


Q ss_pred             HHHHHhHhcCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 044256          230 KIFNEMKLCNVVPETFTCNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKL  305 (363)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  305 (363)
                                  .+..+.+.|.+++.+    .+....|.-+|+++.+. .+|++.+.+-...++...|++++|..++++.
T Consensus       167 ------------ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~ea  233 (299)
T KOG3081|consen  167 ------------DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEA  233 (299)
T ss_pred             ------------chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHH
Confidence                        356677778777765    35688999999999865 4889999999999999999999999999999


Q ss_pred             hhCCCCccHHHHHHHHHHHHccCChhH-HHHHHHHHHH
Q 044256          306 SCKNLVADVVAYNILIHALGKEGQIKK-ENYLLLSMEE  342 (363)
Q Consensus       306 ~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~  342 (363)
                      .... ..++.+...++.+-...|...+ ..+.+.++..
T Consensus       234 L~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  234 LDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             Hhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            8875 4467777777776666776544 4556666655

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

Probab=98.57  E-value=1.5e-05  Score=66.25  Aligned_cols=136  Identities=12%  Similarity=0.131  Sum_probs=71.1

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC-hHHHHHHHH
Q 044256          174 LVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE-TFTCNIFID  252 (363)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~  252 (363)
                      ..|+.+.|+..++.+... .+-|+..+......+...++..+|.+.+++++...              |+ ....-.+..
T Consensus       318 ~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--------------P~~~~l~~~~a~  382 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--------------PNSPLLQLNLAQ  382 (484)
T ss_pred             HhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--------------CCccHHHHHHHH
Confidence            345555555555555544 12233333444455555666666655555555433              33 333444455


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhH
Q 044256          253 GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       253 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  332 (363)
                      ++.+.|++.+|+.+++...... +.|+..|..|..+|...|+..++.....+.                  +...|+++.
T Consensus       383 all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~------------------~~~~G~~~~  443 (484)
T COG4783         383 ALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEG------------------YALAGRLEQ  443 (484)
T ss_pred             HHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHH------------------HHhCCCHHH
Confidence            5556666666666665555443 555556666666666665555554433332                  233455666


Q ss_pred             HHHHHHHHHHc
Q 044256          333 ENYLLLSMEEN  343 (363)
Q Consensus       333 a~~~~~~m~~~  343 (363)
                      |...+....+.
T Consensus       444 A~~~l~~A~~~  454 (484)
T COG4783         444 AIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHHh
Confidence            66666665554

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

Probab=98.56  E-value=0.00011  Score=56.38  Aligned_cols=240  Identities=14%  Similarity=0.101  Sum_probs=143.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhc
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKD  113 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  113 (363)
                      +.-.|++..++..-+.....  +-++..-..+-++|...|.+.....   ++....       .|.......+......-
T Consensus        18 ~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-------~~~lqAvr~~a~~~~~e   85 (299)
T KOG3081|consen   18 YFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVIS---EIKEGK-------ATPLQAVRLLAEYLELE   85 (299)
T ss_pred             HHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHccccccccc---cccccc-------CChHHHHHHHHHHhhCc
Confidence            44467777777665554433  1333344445566666665443322   111111       11122222222222223


Q ss_pred             CCHHHHH-HHHHHHHHcCCCcch--------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 044256          114 RLVDQTK-DLFMEMKDKGINANT--------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIAL  184 (363)
Q Consensus       114 ~~~~~a~-~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  184 (363)
                      ++.+.-+ ++.+.+.......+.        .++..+++++|++..+...      +......=+..+.+..+.+-|++.
T Consensus        86 ~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~  159 (299)
T KOG3081|consen   86 SNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKE  159 (299)
T ss_pred             chhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3322222 233333333333331        6677888888888776521      223333345567788899999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          185 FDSMARKGFMPDVFSYSVLINGYCK----NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      +++|.+..   +..|.+-|..++.+    .+...+|.-+|+++...             .+|++.+.+....++...|++
T Consensus       160 lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-------------~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  160 LKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-------------TPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-------------cCCChHHHccHHHHHHHhcCH
Confidence            99999862   55666666666654    46788898888887653             358999999999999999999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCCh-HHHHHHHHHhhhC
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF-EIASELFNKLSCK  308 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~~  308 (363)
                      ++|..+++...... ..++.+...++.+-...|.. +...+.+.++...
T Consensus       224 eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  224 EEAESLLEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            99999999998876 45566666666655556654 4445566666554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.55  E-value=2e-05  Score=71.13  Aligned_cols=128  Identities=9%  Similarity=0.047  Sum_probs=97.5

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      .|.++..+..|..+..+.|.+++|..+++...+.  .|+ ...+..+..++.+.+++++|+..+++.....       +.
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-------p~  152 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-------SS  152 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-------CC
Confidence            4446888888999999999999999999998886  455 4466778888889999999999999998865       55


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHc
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      +......+..++.+.|++++|..+|+++...+..+..       .+-..|+.++|...|+...+.
T Consensus       153 ~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        153 SAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             CHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6777788888888999999999999998874433222       344556666666666665544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.55  E-value=0.00011  Score=66.41  Aligned_cols=139  Identities=11%  Similarity=0.021  Sum_probs=78.1

Q ss_pred             hHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCcccHHHHHHHHHhcCChhHHHHHHHH
Q 044256            6 GALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFG-CRPNVTTCDTLITGLRRTGNMNLTLKLHQE   84 (363)
Q Consensus         6 ~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   84 (363)
                      .|.+.|+.+.+.  .|.+..++....+.|++..+++.|..+.-..-+.. ...-...|....-.|...++...+..-|+.
T Consensus       510 RA~kCf~KAFeL--Datdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQs  587 (1238)
T KOG1127|consen  510 RAKKCFDKAFEL--DATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQS  587 (1238)
T ss_pred             HHHHHHHHHhcC--CchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHH
Confidence            444455544443  44445555555555555555555555421111110 000111222333334445555556666665


Q ss_pred             HHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHHHHHHHHH
Q 044256           85 MVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~~~~~~~~  155 (363)
                      .....       +.|...|..+..+|.++|++..|.++|.+....  .|.+         ..+..|.+.+|...+..++.
T Consensus       588 ALR~d-------PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  588 ALRTD-------PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhcCC-------chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            55543       556778888888888888888888888877654  3443         45677888888887777654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=0.00018  Score=54.81  Aligned_cols=162  Identities=14%  Similarity=0.053  Sum_probs=98.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      |..++-+....|+.+.|..+++.+.+. ++-+...-..-..-+-..|++++|.++++.++..+             +.|.
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-------------pt~~  120 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-------------PTDT  120 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-------------cchh
Confidence            444555566677777777777777665 22122221111122344677777777777766654             3455


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      +++---+...-..|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++.-.. |.++..+..+...+
T Consensus       121 v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~-P~n~l~f~rlae~~  198 (289)
T KOG3060|consen  121 VIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQ-PFNPLYFQRLAEVL  198 (289)
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHH
Confidence            55655555555667666777776666654 46677777777777777777777777777777653 33444555555444


Q ss_pred             HccC---ChhHHHHHHHHHHH
Q 044256          325 GKEG---QIKKENYLLLSMEE  342 (363)
Q Consensus       325 ~~~g---~~~~a~~~~~~m~~  342 (363)
                      ...|   +.+-+.++|.+.++
T Consensus       199 Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  199 YTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HHHhhHHHHHHHHHHHHHHHH
Confidence            3333   45556777777766

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.53  E-value=2.5e-05  Score=70.44  Aligned_cols=83  Identities=16%  Similarity=0.027  Sum_probs=48.2

Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHH
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKEN  334 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  334 (363)
                      ...|++.-+.--|-+-.... +....+|..+...+.+..+++.|...|...+... +.|...|-.........|+.-++.
T Consensus       827 sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~  904 (1238)
T KOG1127|consen  827 SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERL  904 (1238)
T ss_pred             hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHH
Confidence            44455555555554444333 4455566666666667777777777777776653 445555655555555556555555


Q ss_pred             HHHHH
Q 044256          335 YLLLS  339 (363)
Q Consensus       335 ~~~~~  339 (363)
                      .+|..
T Consensus       905 ~lfaH  909 (1238)
T KOG1127|consen  905 ILFAH  909 (1238)
T ss_pred             HHHHh
Confidence            55554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.52  E-value=1.9e-07  Score=48.84  Aligned_cols=33  Identities=36%  Similarity=0.516  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  348 (363)
                      +|+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            678888888888888888888888888888887

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=98.49  E-value=0.00016  Score=55.14  Aligned_cols=150  Identities=18%  Similarity=0.126  Sum_probs=91.2

Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCch-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCCh
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNV-FCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKL  143 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~  143 (363)
                      ..+.++..+++.+++......  ...++. ..|..++-+....|+.+.|...++++.+.-+....       .+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~--~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSG--ALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhc--ccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhch
Confidence            346778888888777654211  134444 34666777888899999999999999876422111       34455666


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 044256          144 VEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREM  223 (363)
Q Consensus       144 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (363)
                      ++|.++++.+++.+ |.|..++---+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            66666666666554 444455554444444555555666555555544 4446666666666666666666666555555


Q ss_pred             HH
Q 044256          224 IL  225 (363)
Q Consensus       224 ~~  225 (363)
                      +-
T Consensus       181 ll  182 (289)
T KOG3060|consen  181 LL  182 (289)
T ss_pred             HH
Confidence            43

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

Probab=98.49  E-value=0.00053  Score=58.09  Aligned_cols=131  Identities=14%  Similarity=0.086  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL  277 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  277 (363)
                      +|...|....+..-...|.            .+|....+.+..+ +....++++..+| .++..-|.++|+--.+. +.-
T Consensus       368 v~~~~mn~irR~eGlkaaR------------~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d  433 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAAR------------KIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGD  433 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHH------------HHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCC
Confidence            3444455444555555554            4444455545555 6778888888776 47889999999986654 244


Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc--HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          278 FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD--VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       278 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ++.-....+.-+...++-..+..+|++....++.|+  ...|..+|.-=..-|+...+.++-+++...
T Consensus       434 ~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  434 SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            455556778888899999999999999998866555  578999999889999999999998887653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.49  E-value=3.3e-07  Score=47.93  Aligned_cols=34  Identities=41%  Similarity=0.810  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV   59 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   59 (363)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999984

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.

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

Probab=98.47  E-value=2.5e-05  Score=56.41  Aligned_cols=126  Identities=10%  Similarity=0.036  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh----HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256          198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET----FTCNIFIDGLCKNGHVLEVMELFPTLEIS  273 (363)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  273 (363)
                      ..|..++..+ ..++...+...++.+....              |+.    ...-.+...+...|++++|...|+.+...
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--------------~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~   77 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDY--------------PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN   77 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHC--------------CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            3455555555 4778888877777666553              333    23334557788899999999999999987


Q ss_pred             cCcch--HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHH
Q 044256          274 NCELF--VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSM  340 (363)
Q Consensus       274 ~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  340 (363)
                      ...|+  ......|...+...|++++|...++.....  ......+......+.+.|++++|...|+..
T Consensus        78 ~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   78 APDPELKPLARLRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            52232  234556778889999999999999875443  345566777788999999999999999864

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.47  E-value=3.3e-07  Score=47.53  Aligned_cols=33  Identities=30%  Similarity=0.381  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 044256          315 VAYNILIHALGKEGQIKKENYLLLSMEENGCAL  347 (363)
Q Consensus       315 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  347 (363)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467777777777777777777777777777766

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.45  E-value=8.1e-05  Score=65.29  Aligned_cols=251  Identities=12%  Similarity=-0.011  Sum_probs=119.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           29 SLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        29 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      ..+.+......|.+|+.+++.+...+  .-..-|..+.+-|+..|+++.|.++|.+.-               .++-.|.
T Consensus       737 kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------------~~~dai~  799 (1636)
T KOG3616|consen  737 KAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------------LFKDAID  799 (1636)
T ss_pred             HHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------------hhHHHHH
Confidence            34444555566666666666555432  122234555556666666666665554321               2444455


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcch-------------------hhhccCChHHHHHHHHHHHHc--------CCCCc
Q 044256          109 GLCKDRLVDQTKDLFMEMKDKGINANT-------------------LLCKKTKLVEANRLLELMMQR--------GLNPV  161 (363)
Q Consensus       109 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~a~~~~~~~~~~--------~~~~~  161 (363)
                      .|.+.|+|+.|.++-++.....-....                   .|..-|.++.|.+.+++....        ...|+
T Consensus       800 my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~h~d  879 (1636)
T KOG3616|consen  800 MYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKHHGD  879 (1636)
T ss_pred             HHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHHHHhChh
Confidence            566666666665554443211100000                   222233333344333321100        01122


Q ss_pred             --hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          162 --IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       162 --~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                        ..|...+..-+-..|+...|+..|-+..+         |.+-+..|...+.|++|.++-+.--..+.....-.|-...
T Consensus       880 ~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaks  950 (1636)
T KOG3616|consen  880 HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKS  950 (1636)
T ss_pred             hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHh
Confidence              22344445555566777776666544322         4555666666777777766544311000011111111111


Q ss_pred             CCCChH--------HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          240 VVPETF--------TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       240 ~~~~~~--------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      +..+..        ....-++..+..+.++-|+++-+-..+.. .|.  ...-+..-+-..|++++|.+.+-+..+.
T Consensus       951 iggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k-~~~--vhlk~a~~ledegk~edaskhyveaikl 1024 (1636)
T KOG3616|consen  951 IGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK-MGE--VHLKLAMFLEDEGKFEDASKHYVEAIKL 1024 (1636)
T ss_pred             hCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc-Ccc--chhHHhhhhhhccchhhhhHhhHHHhhc
Confidence            111111        12233444556667777777776666554 222  2233444566789999998877776654

>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=98.45  E-value=2.5e-05  Score=65.29  Aligned_cols=125  Identities=14%  Similarity=0.080  Sum_probs=96.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV  279 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  279 (363)
                      ...|+..+...++++.|..+++++.+..              |+  ....++..+...++..+|.+++++..+.. +.+.
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--------------pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~  234 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--------------PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDS  234 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--------------Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCH
Confidence            3455566666788999988887776543              54  34457777777888889999988888654 5566


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .....-...+.+.++++.|.++.+++.... +-+..+|..|..+|.+.|+++.|+-.++.+..
T Consensus       235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  235 ELLNLQAEFLLSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            777777778888999999999999988873 44667899999999999999999988887763

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

>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=98.45  E-value=1.5e-05  Score=66.67  Aligned_cols=123  Identities=18%  Similarity=0.149  Sum_probs=99.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChH
Q 044256          166 TPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETF  245 (363)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (363)
                      ..|+..+...++++.|+.+|+++.+..  |+  ....++..+...++..+|.+++++.++..             +.+..
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-------------p~d~~  235 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-------------PQDSE  235 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-------------CCCHH
Confidence            445666667889999999999999873  44  44557788888889999998888776543             23556


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      ....-...+...++.+.|+.+.+++.... |.+..+|..|..+|.+.|+++.|+..++.+.
T Consensus       236 LL~~Qa~fLl~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  236 LLNLQAEFLLSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            66666777889999999999999999875 6667799999999999999999999888664

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=98.45  E-value=4.3e-07  Score=47.09  Aligned_cols=33  Identities=30%  Similarity=0.519  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRP   57 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~   57 (363)
                      .+|+.++.+|++.|+++.|.++|+.|.+.|++|
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            589999999999999999999999999999887

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.43  E-value=4.5e-05  Score=66.83  Aligned_cols=54  Identities=19%  Similarity=0.126  Sum_probs=29.7

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          286 IRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      |..|-+.|..+..+++..+-...   .-..|...+..-+-..|+...|..-|-+..+
T Consensus       857 iqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d  910 (1636)
T KOG3616|consen  857 IQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD  910 (1636)
T ss_pred             HHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh
Confidence            44455555555555554443211   1234455566667777888888776655543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=0.00021  Score=63.52  Aligned_cols=244  Identities=16%  Similarity=0.125  Sum_probs=164.9

Q ss_pred             CcccHHHHH--HHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----
Q 044256           58 NVTTCDTLI--TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG-----  130 (363)
Q Consensus        58 ~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----  130 (363)
                      |..|-..++  +.|...|+.+.|.+-.+.++.            ..+|..+.+.|.+.++++-|.-.+-.|....     
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAl  792 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARAL  792 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHH
Confidence            444555554  346677999999888776665            4589999999999999988877766664321     


Q ss_pred             ----CCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhH
Q 044256          131 ----INANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS  199 (363)
Q Consensus       131 ----~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  199 (363)
                          -.++.       .....|..++|+.++.+....+         .|=..|-..|.|++|.++-+.=..-.   -..|
T Consensus       793 R~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~T  860 (1416)
T KOG3617|consen  793 RRAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIH---LRNT  860 (1416)
T ss_pred             HHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhcccee---hhhh
Confidence                11111       5568899999999999887643         34455666899999998875432221   2245


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc--------CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC--------NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLE  271 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  271 (363)
                      |......+-..++.+.|++.|++.-... ..+++.+.+.        .-..|...|.--.+..-..|+.+.|+.+|....
T Consensus       861 yy~yA~~Lear~Di~~AleyyEK~~~ha-fev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~  939 (1416)
T KOG3617|consen  861 YYNYAKYLEARRDIEAALEYYEKAGVHA-FEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK  939 (1416)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHhcCChH-HHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh
Confidence            5555566666788899988888643222 1222222211        012344556666666677889999999888765


Q ss_pred             hccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          272 ISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       272 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      +         |-++++..|-.|+.++|-++-++-      -|......+.+.|-..|++.+|...|.+..
T Consensus       940 D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  940 D---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             h---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            3         456677778888888888876652      266777778888989999999988887765

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

Probab=98.35  E-value=1.1e-05  Score=53.07  Aligned_cols=78  Identities=18%  Similarity=0.325  Sum_probs=53.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCC-CccHHHHHHHHHHHHccC--------ChhHHHHHHHHHHHcCCCCCHHHHHH
Q 044256          284 SLIRGCCKFGIFEIASELFNKLSCKNL-VADVVAYNILIHALGKEG--------QIKKENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       284 ~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      ..|..+...+++.....+|+.+.+.|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|+..+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            344445555777777777777777777 677777777776655432        23456778888888888888888888


Q ss_pred             HHHHHhh
Q 044256          355 LMISFLQ  361 (363)
Q Consensus       355 ll~~~~~  361 (363)
                      ++.++.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8887764

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 [, , ].

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

Probab=98.34  E-value=2.1e-05  Score=65.83  Aligned_cols=105  Identities=15%  Similarity=0.018  Sum_probs=90.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCCh
Q 044256          251 IDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQI  330 (363)
Q Consensus       251 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  330 (363)
                      ...+...|++++|+..|++++... +.+...|..+..+|...|++++|...++++.... +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            455667899999999999999876 6678889999999999999999999999999875 45778888899999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          331 KKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       331 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      ++|...|++.++  +.|+...+..++..|
T Consensus        87 ~eA~~~~~~al~--l~P~~~~~~~~l~~~  113 (356)
T PLN03088         87 QTAKAALEKGAS--LAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            999999999998  678877777777665

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

Probab=98.33  E-value=1.2e-05  Score=67.51  Aligned_cols=122  Identities=17%  Similarity=0.219  Sum_probs=102.0

Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHH
Q 044256          240 VVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAY  317 (363)
Q Consensus       240 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  317 (363)
                      .+.+......++..+....+++.+..++.+.....  ...-+.|..++++.|...|..+.+..++..=...|+-||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            34566677888888888888999999888887652  2223445679999999999999999999999999999999999


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          318 NILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       318 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      +.++..+.+.|++..|.++...|...+...+..|+..-+.+|.+
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            99999999999999999999999888777888888877777654

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 [].

>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=98.30  E-value=1.8e-05  Score=52.29  Aligned_cols=94  Identities=19%  Similarity=0.069  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc
Q 044256          247 CNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK  326 (363)
Q Consensus       247 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  326 (363)
                      +..+...+...|++++|...++.+.+.. +.+...+..+...+...+++++|.+.++...... +.+...+..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            4556777888999999999999998765 5555778888999999999999999999988764 4456788888899999


Q ss_pred             cCChhHHHHHHHHHHH
Q 044256          327 EGQIKKENYLLLSMEE  342 (363)
Q Consensus       327 ~g~~~~a~~~~~~m~~  342 (363)
                      .|++++|...+.+..+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            9999999999998876

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

Probab=98.28  E-value=3.4e-05  Score=55.66  Aligned_cols=115  Identities=15%  Similarity=0.093  Sum_probs=84.8

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc--ccHHHHHHHHHhcCChh
Q 044256            2 SKVLGALMAFGSFIRRCYRPLN---DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV--TTCDTLITGLRRTGNMN   76 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~~~~~~   76 (363)
                      |+...+...++.+...  .|.+   ....-.+...+...|++++|...|+........|+.  .....|..++...|+++
T Consensus        25 ~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   25 GDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            5677778888888876  4534   233444567788899999999999999987522221  23445678888999999


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  126 (363)
                      +|+..++....        .......+.....++.+.|++++|...|+..
T Consensus       103 ~Al~~L~~~~~--------~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  103 EALATLQQIPD--------EAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHhccC--------cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            99999977433        2345567778889999999999999998763

>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=98.25  E-value=2e-05  Score=52.07  Aligned_cols=96  Identities=13%  Similarity=0.074  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      +|..+...+...|++++|...+++..+.. +.+...+..+..++...+++++|.+.++......       +.+..++..
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~   73 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-------PDNAKAYYN   73 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------CcchhHHHH
Confidence            46667788888999999999999988763 3334667778888888899999999999988754       445567888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      +...+...|+++.|...+....+.
T Consensus        74 ~~~~~~~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          74 LGLAYYKLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHcc
Confidence            888899999999999998887654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.24  E-value=0.00089  Score=54.38  Aligned_cols=168  Identities=13%  Similarity=0.111  Sum_probs=93.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCc--HhHHHHHHHHHHhc-CChhHHHHHHHHHHHhhHHHHHHHhHh
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARK----GFMPD--VFSYSVLINGYCKN-FNVEEAMNVSREMILNGFKKIFNEMKL  237 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (363)
                      |......|.+. +++.|...++...+.    | .|+  ...+..+...|... |++++|++.|++....     +..-..
T Consensus        78 ~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~-----y~~e~~  150 (282)
T PF14938_consen   78 YEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAEL-----YEQEGS  150 (282)
T ss_dssp             HHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHH-----HHHTT-
T ss_pred             HHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-----HHHCCC
Confidence            33333444333 666666666654432    2 111  23455555667776 8888888888876532     221110


Q ss_pred             cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----cchHH-HHHHHHHHHHhcCChHHHHHHHHHhhhCC--
Q 044256          238 CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----ELFVE-IFNSLIRGCCKFGIFEIASELFNKLSCKN--  309 (363)
Q Consensus       238 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~--  309 (363)
                        ...-..++..+...+.+.|++++|.++|+++.....     ..+.. .+...+-++...||+..|.+.+++.....  
T Consensus       151 --~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~  228 (282)
T PF14938_consen  151 --PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPS  228 (282)
T ss_dssp             --HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred             --hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence              011234566677788888999999999988775432     22222 23344456667788888888888877542  


Q ss_pred             CC--ccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          310 LV--ADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       310 ~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +.  ........|+.++ ..|+.+.......+.-.
T Consensus       229 F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~d~  262 (282)
T PF14938_consen  229 FASSREYKFLEDLLEAY-EEGDVEAFTEAVAEYDS  262 (282)
T ss_dssp             STTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHHTT
T ss_pred             CCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHHcc
Confidence            22  2244455556654 55777776666666554

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

Probab=98.22  E-value=3.5e-06  Score=54.37  Aligned_cols=81  Identities=16%  Similarity=0.228  Sum_probs=62.5

Q ss_pred             ChhhhhHHHHHHHHHHcCC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCY-RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|+++.|+.+|+.+.+... .| +...+..+..++.+.|++++|+.++++ .+.+ +.+....-.+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            4899999999999999733 12 456677799999999999999999998 3332 223345556688999999999999


Q ss_pred             HHHHH
Q 044256           80 KLHQE   84 (363)
Q Consensus        80 ~~~~~   84 (363)
                      ++|++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            99876

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.22  E-value=9.3e-05  Score=51.36  Aligned_cols=97  Identities=14%  Similarity=-0.009  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc---hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC--CccHHHHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCEL---FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL--VADVVAYNIL  320 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l  320 (363)
                      ++..+...+.+.|++++|.+.|..+.... +.   ....+..+..++.+.|+++.|...|+.+.....  +.....+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY-PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            45567777889999999999999998753 22   245677789999999999999999999987531  1125677888


Q ss_pred             HHHHHccCChhHHHHHHHHHHHc
Q 044256          321 IHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..++.+.|++++|.+.++++.+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            88999999999999999999986

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.

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

Probab=98.22  E-value=4.6e-05  Score=61.53  Aligned_cols=143  Identities=10%  Similarity=0.009  Sum_probs=97.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHH-HHhcCCHHHHHHHHHHHHhccCc
Q 044256          198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG-LCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      .+|..++....+.+..+.|..+|.++.+.+             ..+...|...... +...++.+.|.++|+...+. ++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-------------~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~   67 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-------------RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FP   67 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-------------CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HT
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-------------CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CC
Confidence            467778888888888888877777664321             2234445444444 22356677799999998876 46


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH---HHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV---VAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFN  353 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  353 (363)
                      .+...|...+..+...++.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+.++.+++.+  .-|+...+.
T Consensus        68 ~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~--~~~~~~~~~  144 (280)
T PF05843_consen   68 SDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE--LFPEDNSLE  144 (280)
T ss_dssp             T-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH--HTTTS-HHH
T ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HhhhhhHHH
Confidence            77788888888888999999999999998876 33333   5888888888888999999999988887  345545444


Q ss_pred             HHHH
Q 044256          354 TLMI  357 (363)
Q Consensus       354 ~ll~  357 (363)
                      .++.
T Consensus       145 ~f~~  148 (280)
T PF05843_consen  145 LFSD  148 (280)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            4443

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.20  E-value=6e-05  Score=52.34  Aligned_cols=101  Identities=12%  Similarity=-0.031  Sum_probs=80.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      +.++..+...+.+.|++++|...|+.+....  |+    ...+..+..++.+.|+++.|...|+.+....+.    .+..
T Consensus         2 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~   75 (119)
T TIGR02795         2 EEAYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK----SPKA   75 (119)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC----CCcc
Confidence            3567788888999999999999999998763  33    245667889999999999999999999875310    1122


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      ..++..+..++.+.|+++.|...++++.+..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        76 PDALLKLGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             cHHHHHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence            4567888888999999999999999998763

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.20  E-value=2.9e-05  Score=55.16  Aligned_cols=86  Identities=10%  Similarity=-0.065  Sum_probs=77.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..+|+.+...  .|.+..-|..|.-++...|++++|+..|....... +-|...+-.+..++...|+.+.|.+
T Consensus        48 ~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~~~A~~  124 (157)
T PRK15363         48 VKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNVCYAIK  124 (157)
T ss_pred             CCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCHHHHHH
Confidence            48999999999999986  88789999999999999999999999999999886 4567788889999999999999999


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .|+..+...
T Consensus       125 aF~~Ai~~~  133 (157)
T PRK15363        125 ALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHh
Confidence            999988754

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

Probab=98.18  E-value=3.4e-05  Score=64.59  Aligned_cols=86  Identities=10%  Similarity=-0.029  Sum_probs=77.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|++.|+.+++.  .|.+...|..+..+|.+.|++++|+..+++++... +.+...|..+..++...|++++|+.
T Consensus        15 ~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~   91 (356)
T PLN03088         15 DDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKA   91 (356)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            47899999999999987  77789999999999999999999999999999874 3456688889999999999999999


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .|+...+..
T Consensus        92 ~~~~al~l~  100 (356)
T PLN03088         92 ALEKGASLA  100 (356)
T ss_pred             HHHHHHHhC
Confidence            999999843

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

Probab=98.18  E-value=2e-06  Score=43.37  Aligned_cols=30  Identities=33%  Similarity=0.434  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  345 (363)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            567777777777777777777777776653

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

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

Probab=98.18  E-value=5e-05  Score=63.88  Aligned_cols=122  Identities=9%  Similarity=0.085  Sum_probs=71.7

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK--GFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      +.+......+++.+....+++.+..++......  ....-..|..++++.|.+.|..++++.+++            .-.
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~------------n~~  130 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLK------------NRL  130 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHh------------Chh
Confidence            445555666666666666666666666666554  111122344567777777777777654333            333


Q ss_pred             hcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc
Q 044256          237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF  292 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  292 (363)
                      ..|+-||..+++.||+.+.+.|++..|.++...|...+...++.++..-+.+|.+.
T Consensus       131 ~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  131 QYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            44566777777777777777777777777766666555555555555444444433

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 [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.18  E-value=3.8e-05  Score=59.95  Aligned_cols=102  Identities=15%  Similarity=0.040  Sum_probs=87.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH
Q 044256          254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE  333 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  333 (363)
                      ..+.+++.+|+..|.+.++.. |-|+..|..=..+|.+.|.++.|++-.+..+..+ +--..+|..|-.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            456789999999999999886 7788888888999999999999999999888874 33567899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          334 NYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       334 ~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      .+.|++.++  +.|+..+|..=|...
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            999999998  889999888766654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.17  E-value=0.00025  Score=52.91  Aligned_cols=99  Identities=8%  Similarity=-0.045  Sum_probs=75.6

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN--VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      .|.....+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+..       +
T Consensus        31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-------p  103 (172)
T PRK02603         31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-------P  103 (172)
T ss_pred             HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------c
Confidence            344566788888899999999999999999987532222  3578888899999999999999999999853       4


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFME  125 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~  125 (363)
                      .+...+..+..++...|+...+..-++.
T Consensus       104 ~~~~~~~~lg~~~~~~g~~~~a~~~~~~  131 (172)
T PRK02603        104 KQPSALNNIAVIYHKRGEKAEEAGDQDE  131 (172)
T ss_pred             ccHHHHHHHHHHHHHcCChHhHhhCHHH
Confidence            4566777777888887776655544443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.16  E-value=0.00035  Score=49.80  Aligned_cols=103  Identities=11%  Similarity=-0.017  Sum_probs=86.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc
Q 044256          247 CNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK  326 (363)
Q Consensus       247 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  326 (363)
                      .-.+..-+...|++++|.++|+-+.... +-+..-|..|..++-..|++++|+..|......+ +-|+..+-.+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3344555678999999999999999876 6677888899999999999999999999999886 4688899999999999


Q ss_pred             cCChhHHHHHHHHHHHc-CCCCCHHH
Q 044256          327 EGQIKKENYLLLSMEEN-GCALDVDT  351 (363)
Q Consensus       327 ~g~~~~a~~~~~~m~~~-g~~p~~~~  351 (363)
                      .|+.+.|.+.|+..+.. +-.|....
T Consensus       116 lG~~~~A~~aF~~Ai~~~~~~~~~~~  141 (157)
T PRK15363        116 CDNVCYAIKALKAVVRICGEVSEHQI  141 (157)
T ss_pred             cCCHHHHHHHHHHHHHHhccChhHHH
Confidence            99999999999998875 33444433

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

Probab=98.14  E-value=4.5e-05  Score=50.29  Aligned_cols=80  Identities=16%  Similarity=0.241  Sum_probs=68.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCcccHHHHHHHHHhcC--------ChhHHHHHHHHHHhccCCCCCccC
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGC-RPNVTTCDTLITGLRRTG--------NMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+      ++
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~------lK  101 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNK------LK  101 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhc------cC
Confidence            34456667778999999999999999999 999999999999987654        2446788999999988      99


Q ss_pred             CchhhHHHHHHHHHh
Q 044256           98 PNVFCYGSLIDGLCK  112 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~  112 (363)
                      |+..+|+.++..+.+
T Consensus       102 P~~etYnivl~~Llk  116 (120)
T PF08579_consen  102 PNDETYNIVLGSLLK  116 (120)
T ss_pred             CcHHHHHHHHHHHHH
Confidence            999999999988754

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 [, , ].

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.13  E-value=1e-05  Score=49.80  Aligned_cols=61  Identities=16%  Similarity=0.236  Sum_probs=49.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTL   65 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   65 (363)
                      .|++++|++.|+.+.+.  .|.+..++..+..+|.+.|++++|..+++++...  .|+...|..+
T Consensus         4 ~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            48899999999999887  7778888889999999999999999999998876  5665445444

...

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.13  E-value=0.00021  Score=57.96  Aligned_cols=139  Identities=14%  Similarity=0.124  Sum_probs=78.5

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS---  273 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---  273 (363)
                      ...|...+..|...|++..|-.++.++-+.     +..        .             .|++++|++.|++..+.   
T Consensus        94 i~~~~~A~~~y~~~G~~~~aA~~~~~lA~~-----ye~--------~-------------~~d~e~Ai~~Y~~A~~~y~~  147 (282)
T PF14938_consen   94 IECYEKAIEIYREAGRFSQAAKCLKELAEI-----YEE--------Q-------------LGDYEKAIEYYQKAAELYEQ  147 (282)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-----HCC--------T-------------T--HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-----HHH--------H-------------cCCHHHHHHHHHHHHHHHHH
Confidence            345677777888888888887666654321     110        0             04556666665555432   


Q ss_pred             -cC-cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC-----CccHH-HHHHHHHHHHccCChhHHHHHHHHHHHc--
Q 044256          274 -NC-ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL-----VADVV-AYNILIHALGKEGQIKKENYLLLSMEEN--  343 (363)
Q Consensus       274 -~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~--  343 (363)
                       +. ..-...+..+...+.+.|++++|.++|+++...-.     ..+.. .|...+-++...||+..|.+.+++....  
T Consensus       148 e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~  227 (282)
T PF14938_consen  148 EGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDP  227 (282)
T ss_dssp             TT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred             CCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence             21 11234556677778888888888888888765421     22222 2334445666778888888888887754  


Q ss_pred             CCCCC--HHHHHHHHHHHhh
Q 044256          344 GCALD--VDTFNTLMISFLQ  361 (363)
Q Consensus       344 g~~p~--~~~~~~ll~~~~~  361 (363)
                      ++..+  ......||.+|-.
T Consensus       228 ~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  228 SFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             TSTTSHHHHHHHHHHHHHHT
T ss_pred             CCCCcHHHHHHHHHHHHHHh
Confidence            23223  3455566666543

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

Probab=98.13  E-value=3.1e-05  Score=49.93  Aligned_cols=81  Identities=17%  Similarity=0.119  Sum_probs=43.8

Q ss_pred             cCCHHHHHHHHHHHHhccCc-chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHH
Q 044256          257 NGHVLEVMELFPTLEISNCE-LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       257 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  335 (363)
                      .|+++.|+.+++++.+.... ++...+..+..+|.+.|++++|..+++. ...+ +.+......+..++.+.|++++|++
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            35666666666666655321 2344444466666666666666666666 2221 1123333344566666666666666


Q ss_pred             HHHH
Q 044256          336 LLLS  339 (363)
Q Consensus       336 ~~~~  339 (363)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

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

Probab=98.10  E-value=5.4e-06  Score=41.77  Aligned_cols=30  Identities=37%  Similarity=0.716  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGC   55 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   55 (363)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            688888888888888888888888887763

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.

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

Probab=98.06  E-value=0.00022  Score=57.65  Aligned_cols=145  Identities=9%  Similarity=0.054  Sum_probs=103.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh-cCChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR-TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      .+|..+++...+.+..+.|..+|.+..+.+ ..+...|......-.+ .++.+.|..+|+...+.       .+.+...|
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-------f~~~~~~~   73 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-------FPSDPDFW   73 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-------HTT-HHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-------CCCCHHHH
Confidence            478899999999999999999999998543 2234445444444233 56777799999999986       47788899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcCCHHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP-VIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      ...+..+.+.++.+.|..+|++.... +. .                        .. ....|..++..-.+.|+.+.+.
T Consensus        74 ~~Y~~~l~~~~d~~~aR~lfer~i~~-l~-~------------------------~~~~~~iw~~~i~fE~~~Gdl~~v~  127 (280)
T PF05843_consen   74 LEYLDFLIKLNDINNARALFERAISS-LP-K------------------------EKQSKKIWKKFIEFESKYGDLESVR  127 (280)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHCCT-SS-C------------------------HHHCHHHHHHHHHHHHHHS-HHHHH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHh-cC-c------------------------hhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999999999998754 11 0                        11 2357888888888999999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLIN  205 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~  205 (363)
                      ++.+++.+.  .|+......+++
T Consensus       128 ~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen  128 KVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHHHHHHH--hhhhhHHHHHHH
Confidence            999988876  344333443443

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.03  E-value=0.0097  Score=53.91  Aligned_cols=218  Identities=17%  Similarity=0.050  Sum_probs=141.9

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          111 CKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       111 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      ...+++..|+....++.+..+....       +..+.|..++|..+++.....+.. |..|...+-..|...++.++|..
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            3567788888888888776443332       667899999999888887766544 78899999999999999999999


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc-CC---
Q 044256          184 LFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN-GH---  259 (363)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~---  259 (363)
                      +|+.....  -|+......+..+|.+-+.+.+-.++--++-+.             .+-....|-.+++..... ..   
T Consensus        99 ~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-------------~pk~~yyfWsV~Slilqs~~~~~~  163 (932)
T KOG2053|consen   99 LYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-------------FPKRAYYFWSVISLILQSIFSENE  163 (932)
T ss_pred             HHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------------CCcccchHHHHHHHHHHhccCCcc
Confidence            99998876  566666777777888877766544332222211             122334444444444322 11   


Q ss_pred             ------HHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHhcCChHHHHHHHHH-hhhCCCCccHHHHHHHHHHHHccCChh
Q 044256          260 ------VLEVMELFPTLEISN-CELFVEIFNSLIRGCCKFGIFEIASELFNK-LSCKNLVADVVAYNILIHALGKEGQIK  331 (363)
Q Consensus       260 ------~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~li~~~~~~g~~~  331 (363)
                            ..-|.+.++.+.+.+ ---+..-.......+...|.+++|..++.. ..+.-..-+...-+.-+..+...++|.
T Consensus       164 ~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~  243 (932)
T KOG2053|consen  164 LLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQ  243 (932)
T ss_pred             cccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChH
Confidence                  234555566665543 112222233334455678889999999843 333322334444455667777889999


Q ss_pred             HHHHHHHHHHHcC
Q 044256          332 KENYLLLSMEENG  344 (363)
Q Consensus       332 ~a~~~~~~m~~~g  344 (363)
                      +..++..++...|
T Consensus       244 ~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  244 ELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999988888865

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.03  E-value=6.4e-05  Score=58.73  Aligned_cols=96  Identities=14%  Similarity=0.152  Sum_probs=82.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .++|++|++.|..+++.  .|.|+..|..-..+|.+.|.++.|++-.+..+... +--..+|..|..+|...|++++|.+
T Consensus        94 ~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   94 NKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             hhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHHH
Confidence            47899999999999996  88899999999999999999999999999888753 2235689999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLI  107 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll  107 (363)
                      .|...++        +.|+-.+|-.=+
T Consensus       171 aykKaLe--------ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  171 AYKKALE--------LDPDNESYKSNL  189 (304)
T ss_pred             HHHhhhc--------cCCCcHHHHHHH
Confidence            9999998        677777665433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.99  E-value=0.00048  Score=60.46  Aligned_cols=119  Identities=7%  Similarity=-0.048  Sum_probs=64.9

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC--------CHHHHHHHHHHHHhc-CCCCCcccHHHHHHHHHhcC
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG--------NIRDASQLVKKMATF-GCRPNVTTCDTLITGLRRTG   73 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~~~~~   73 (363)
                      +.+.|..+|+++.+.  .|.....|..+..++....        +...+.+..++.... ....+...|..+.......|
T Consensus       357 ~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g  434 (517)
T PRK10153        357 SLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKG  434 (517)
T ss_pred             HHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcC
Confidence            355666777776665  6645555555444432221        122333333332221 11223345555544555566


Q ss_pred             ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256           74 NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                      ++++|...++++..        ..|+...|..+...+...|+.++|.+.+++....++
T Consensus       435 ~~~~A~~~l~rAl~--------L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        435 KTDEAYQAINKAID--------LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             CHHHHHHHHHHHHH--------cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            77777777777666        345666666666777777777777777766665433

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.99  E-value=0.00099  Score=45.70  Aligned_cols=106  Identities=14%  Similarity=0.053  Sum_probs=82.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCcch--HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc----HHHHHHHHHH
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEISNCELF--VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD----VVAYNILIHA  323 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~  323 (363)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++.....  |+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            45667788999999999999999875543  4567778889999999999999999988752  33    2333334457


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      +...|+.++|++.+-....    ++...|..-|..|.+
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            7889999999999887765    455588888887765

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.99  E-value=0.0048  Score=48.73  Aligned_cols=182  Identities=14%  Similarity=0.093  Sum_probs=115.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccH----HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTC----DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ++..+......+...|++++|.+.|+.+...  .|+...-    -.+..++.+.+++++|...+++.++..+.     .|
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~-----~~  103 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT-----HP  103 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcC-----CC
Confidence            3444545566677899999999999999986  4544322    34667888999999999999999986521     12


Q ss_pred             chhhHHHHHHHHHh--c---------------CC---HHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC
Q 044256           99 NVFCYGSLIDGLCK--D---------------RL---VDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus        99 ~~~~~~~ll~~~~~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      + .-|...+.+.+.  .               .+   ...|+..|+++++.-+  ++     .-..+|...+..+...= 
T Consensus       104 ~-~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP--~S-----~ya~~A~~rl~~l~~~l-  174 (243)
T PRK10866        104 N-IDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYP--NS-----QYTTDATKRLVFLKDRL-  174 (243)
T ss_pred             c-hHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCc--CC-----hhHHHHHHHHHHHHHHH-
Confidence            2 223333333221  1               12   2456677777776532  22     22333443333332210 


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK--GFMPDVFSYSVLINGYCKNFNVEEAMNVSREM  223 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (363)
                         ...--.+...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+
T Consensus       175 ---a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        175 ---AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             ---HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence               001124567788999999999999999886  33334556677889999999999997665443

>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=97.96  E-value=0.00042  Score=51.87  Aligned_cols=100  Identities=16%  Similarity=0.184  Sum_probs=81.7

Q ss_pred             HHHHHHHHHcCCCCCchhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC---------
Q 044256            8 LMAFGSFIRRCYRPLNDVTFNSLIKGFCME-----GNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG---------   73 (363)
Q Consensus         8 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~---------   73 (363)
                      ...|+.....  .. +-.+|..+++.+.+.     |..+=....+..|.+.|+.-|..+|+.|++++-+..         
T Consensus        34 ~~~f~~~~~~--~k-~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~  110 (228)
T PF06239_consen   34 EELFERAPGQ--AK-DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQA  110 (228)
T ss_pred             HHHHHHHhhc--cc-cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHH
Confidence            3445554332  44 888999999998754     678888889999999999999999999999986522         


Q ss_pred             -------ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH
Q 044256           74 -------NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV  116 (363)
Q Consensus        74 -------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  116 (363)
                             +.+-|++++++|...|      +-||..++..++..+.+.+..
T Consensus       111 ~F~hyp~Qq~c~i~lL~qME~~g------V~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  111 EFMHYPRQQECAIDLLEQMENNG------VMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HhccCcHHHHHHHHHHHHHHHcC------CCCcHHHHHHHHHHhccccHH
Confidence                   3467999999999999      999999999999999887653

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

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.96  E-value=0.001  Score=58.43  Aligned_cols=143  Identities=10%  Similarity=0.036  Sum_probs=98.0

Q ss_pred             CCCCcHhHHHHHHHHHHhc-----CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh-HHHHHHHHHHHhc--------
Q 044256          192 GFMPDVFSYSVLINGYCKN-----FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET-FTCNIFIDGLCKN--------  257 (363)
Q Consensus       192 ~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~--------  257 (363)
                      +.+.+...|...+.+....     +....|..+|++.++.+              |+- ..|..+..++...        
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--------------P~~a~a~A~la~~~~~~~~~~~~~~  397 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--------------PDFTYAQAEKALADIVRHSQQPLDE  397 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--------------CCcHHHHHHHHHHHHHHHhcCCccH
Confidence            3456778888888875432     23668888888887765              553 3444433333221        


Q ss_pred             CCHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          258 GHVLEVMELFPTLEIS-NCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      .+...+.+...+.... ..+.++.+|.++.......|++++|...++++...+  |+...|..+...+...|++++|...
T Consensus       398 ~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~  475 (517)
T PRK10153        398 KQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADA  475 (517)
T ss_pred             HHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            1233444444443332 134456788888777778899999999999999874  6888899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHH
Q 044256          337 LLSMEENGCALDVDTF  352 (363)
Q Consensus       337 ~~~m~~~g~~p~~~~~  352 (363)
                      +++...  +.|...||
T Consensus       476 ~~~A~~--L~P~~pt~  489 (517)
T PRK10153        476 YSTAFN--LRPGENTL  489 (517)
T ss_pred             HHHHHh--cCCCCchH
Confidence            999887  45665544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=0.00079  Score=53.06  Aligned_cols=116  Identities=10%  Similarity=0.033  Sum_probs=92.0

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC---ChhHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG---NMNLTLKL   81 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~   81 (363)
                      +....-++.-++.  .|.|...|-.|..+|.+.|+++.|...|.+..+.. ++|...+..+..++....   ...++..+
T Consensus       139 ~~l~a~Le~~L~~--nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         139 EALIARLETHLQQ--NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             HHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            3444445555555  78899999999999999999999999999988763 456666666666655433   45789999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      |+++...+       +-|+.+...|...+...|++.+|...|+.|.+..
T Consensus       216 l~~al~~D-------~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         216 LRQALALD-------PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHhcC-------CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            99999875       6677888888889999999999999999998763

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.94  E-value=0.0012  Score=49.20  Aligned_cols=48  Identities=15%  Similarity=-0.058  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI  294 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  294 (363)
                      .+..+...+.+.|++++|...+.+..... +.+...+..+...+...|+
T Consensus        74 ~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~  121 (172)
T PRK02603         74 ILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIYHKRGE  121 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCC
Confidence            44445555555555555555555555432 2234444444445544444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.92  E-value=0.00034  Score=52.00  Aligned_cols=116  Identities=8%  Similarity=-0.097  Sum_probs=82.3

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CcccHHHHHHHHHhcCChhHHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRP--NVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      +..+.+.+..+.+..........|..+...+...|++++|+..|++.......+  ...+|..+..++...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            344555566664332222246678888999999999999999999998663222  134788889999999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHH-------hcCCHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLC-------KDRLVDQTKDLFMEM  126 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~-------~~~~~~~a~~~~~~~  126 (363)
                      ++......       +.....+..+...+.       ..|+++.|...+++.
T Consensus        95 ~~~Al~~~-------~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033         95 YFQALERN-------PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhC-------cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            99998753       344566777777776       666766665555443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.92  E-value=6.2e-05  Score=45.72  Aligned_cols=50  Identities=16%  Similarity=0.199  Sum_probs=25.0

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      |++++|...|+.+++.  .|.++..|..+..++...|++++|...|+++.+.
T Consensus        11 g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen   11 GDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             THHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4555555555555554  3444555555555555555555555555555443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.91  E-value=0.0012  Score=52.00  Aligned_cols=113  Identities=12%  Similarity=0.026  Sum_probs=93.2

Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC---ChHHHHHHHHHhhhCCCCccHHHH
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG---IFEIASELFNKLSCKNLVADVVAY  317 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  317 (363)
                      +-|...|..|..+|...|+...|...|++..+.. ++|+..+..+..++....   +..++..+|+++...+ +-|+.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4578899999999999999999999999999886 778888888887776543   4778999999999875 4577788


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          318 NILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       318 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      ..+...+...|++.+|...|+.|++.  -|....+..+|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            88888999999999999999999985  444445555544

>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=97.90  E-value=0.00031  Score=52.59  Aligned_cols=87  Identities=17%  Similarity=0.223  Sum_probs=53.3

Q ss_pred             CChHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc----------------CChHHHHH
Q 044256          242 PETFTCNIFIDGLCK-----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF----------------GIFEIASE  300 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------~~~~~a~~  300 (363)
                      .+-.+|..+++.|.+     .|..+=....++.|.+.|+.-|..+|+.|++.+=+.                .+-+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            456667777776654     355666666667777777777777777777765431                12344556


Q ss_pred             HHHHhhhCCCCccHHHHHHHHHHHHccC
Q 044256          301 LFNKLSCKNLVADVVAYNILIHALGKEG  328 (363)
Q Consensus       301 ~~~~~~~~~~~~~~~~~~~li~~~~~~g  328 (363)
                      ++++|...|+-||..++..++..+++.+
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            6666666666666666666666664443

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

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

Probab=97.87  E-value=0.011  Score=49.38  Aligned_cols=95  Identities=16%  Similarity=0.110  Sum_probs=64.2

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHH-HHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISN-CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVA-YNILI  321 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li  321 (363)
                      ..+|...+.+-.+....+.|..+|-++.+.+ +.+++.++++++.-++ .|+...|..+|+.-...  -||... -+-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3456667777777777888888998888887 5677888888888665 56778888888765554  233333 33445


Q ss_pred             HHHHccCChhHHHHHHHHHH
Q 044256          322 HALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~  341 (363)
                      ..+...++-+.|..+|+...
T Consensus       474 ~fLi~inde~naraLFetsv  493 (660)
T COG5107         474 LFLIRINDEENARALFETSV  493 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhH
Confidence            55556666666666666443

>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=97.86  E-value=0.0001  Score=45.23  Aligned_cols=52  Identities=27%  Similarity=0.204  Sum_probs=27.6

Q ss_pred             hcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          256 KNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       256 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      ..|++++|+++|+.+.... |-+..++..+..+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555443 334555555555555555555555555555544

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.84  E-value=0.00012  Score=44.39  Aligned_cols=56  Identities=16%  Similarity=0.141  Sum_probs=31.6

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          286 IRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ...+.+.|++++|.+.|+++.+.. +-+...+..+..++...|++++|...|+++++
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555666666666666665553 33555555555566666666666666666554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.83  E-value=0.011  Score=48.73  Aligned_cols=256  Identities=12%  Similarity=-0.052  Sum_probs=133.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHH
Q 044256           30 LIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDG  109 (363)
Q Consensus        30 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~  109 (363)
                      ....+.+..++..|+..+...++.. +.+..-|..-...+...++++++.--.+.-++....       ........-++
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-------~~k~~~r~~~c  126 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-------FSKGQLREGQC  126 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecCCC-------ccccccchhhh
Confidence            3444556667778888888777764 333444555555566666666666555544442211       11122222223


Q ss_pred             HHhcCCHHHHHHHHH---------------HHHHcCCCcch----------hhhccCChHHHHHHHHHHHHcCCCCchhh
Q 044256          110 LCKDRLVDQTKDLFM---------------EMKDKGINANT----------LLCKKTKLVEANRLLELMMQRGLNPVIFT  164 (363)
Q Consensus       110 ~~~~~~~~~a~~~~~---------------~~~~~~~~~~~----------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  164 (363)
                      +...++..+|.+.++               ........+..          .+...+++++|.+.--.+++.+ +  ...
T Consensus       127 ~~a~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~--~n~  203 (486)
T KOG0550|consen  127 HLALSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-A--TNA  203 (486)
T ss_pred             hhhhHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-c--chh
Confidence            333333333333222               11111111111          4455667777766665555543 1  122


Q ss_pred             HHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHH---H----------HHHHhcCChhHHHHHHHHHHHhhHH
Q 044256          165 YTPLLNG--YCLVGKVNVAIALFDSMARKGFMPDVFSYSVL---I----------NGYCKNFNVEEAMNVSREMILNGFK  229 (363)
Q Consensus       165 ~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~----------~~~~~~~~~~~a~~~~~~~~~~~~~  229 (363)
                      +..+++.  +--.++.+.+...|++.+..  .|+...-...   .          .-..+.|.+..|.+.+.+.+..++ 
T Consensus       204 ~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP-  280 (486)
T KOG0550|consen  204 EALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDP-  280 (486)
T ss_pred             HHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCc-
Confidence            3333332  23356777777777776655  2333222111   1          123566777777777776665542 


Q ss_pred             HHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          230 KIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                              .++.|+...|.....+..+.|+..+|+.--+...... +.-...|..-..++...+++++|.+-++...+.
T Consensus       281 --------~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  281 --------SNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             --------cccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence                    2445566667666777777888888887777766543 111222333334455567777777777776654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.82  E-value=0.00086  Score=49.82  Aligned_cols=65  Identities=14%  Similarity=-0.019  Sum_probs=51.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHh
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP--DVFSYSVLINGYCKNFNVEEAMNVSREMILN  226 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (363)
                      ...|..+...+...|++++|+..|+........+  ...++..+...+...|++++|...+++....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567778888888999999999999987653222  2357888888999999999999998887654

>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=97.81  E-value=0.0011  Score=47.86  Aligned_cols=73  Identities=19%  Similarity=0.203  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHHHHH
Q 044256          281 IFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE-----NGCALDVDTFNT  354 (363)
Q Consensus       281 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  354 (363)
                      +...++..+...|++++|.++.+.+.... +.+...|..+|.++...|+..+|.+.|+++..     .|+.|+..+-..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            34566677788999999999999999875 66889999999999999999999999998853     399999887543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.78  E-value=0.00014  Score=44.81  Aligned_cols=62  Identities=23%  Similarity=0.089  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccC-ChhHHHHHHHHHHH
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEG-QIKKENYLLLSMEE  342 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  342 (363)
                      .+|..+...+...|++++|...|++..+.+ +.+...|..+..++...| ++++|++.+++.++
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344444555555555555555555555442 224444444555555555 45555555554443

...

>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=97.75  E-value=0.00015  Score=44.67  Aligned_cols=65  Identities=12%  Similarity=0.161  Sum_probs=57.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-ChhHHHHHHHHHHhc
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-NMNLTLKLHQEMVNG   88 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   88 (363)
                      ++.+|..+...+...|++++|+..|++.++.. +.+...|..+..++...| ++++|++.++..++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            67889999999999999999999999999874 446678888999999999 799999999998873

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.73  E-value=0.0023  Score=43.91  Aligned_cols=94  Identities=17%  Similarity=0.102  Sum_probs=62.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC---chh
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPN--VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP---NVF  101 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~~  101 (363)
                      ...+..++-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|..+++......       +.   +..
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-------p~~~~~~~   76 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-------PDDELNAA   76 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------CCccccHH
Confidence            33455666778888888888888888775543  2355667777888888888888888887642       11   222


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          102 CYGSLIDGLCKDRLVDQTKDLFMEMK  127 (363)
Q Consensus       102 ~~~~ll~~~~~~~~~~~a~~~~~~~~  127 (363)
                      ....+..++...|+.++|++.+-...
T Consensus        77 l~~f~Al~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   77 LRVFLALALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            22333446667788888877765544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.72  E-value=0.0038  Score=49.26  Aligned_cols=165  Identities=13%  Similarity=0.171  Sum_probs=100.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhH---HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--cHHHHHHHHHh--cC
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTF---NSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT--TCDTLITGLRR--TG   73 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~l~~~~~~--~~   73 (363)
                      .|++++|.+.|+.+...  .|.++..-   -.++.++.+.+++++|...+++..+.  .|+..  -+...+.+.+.  .+
T Consensus        45 ~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~--~P~~~~~~~a~Y~~g~~~~~~~  120 (243)
T PRK10866         45 DGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVLYMRGLTNMALD  120 (243)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CcCCCchHHHHHHHHHhhhhcc
Confidence            48999999999999986  66444443   45678889999999999999999887  33322  23333333221  11


Q ss_pred             ---------------C---hhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH----HcCC
Q 044256           74 ---------------N---MNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMK----DKGI  131 (363)
Q Consensus        74 ---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~  131 (363)
                                     +   ...|+..|+.+++.-        |+..             -..+|...+..+.    +...
T Consensus       121 ~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y--------P~S~-------------ya~~A~~rl~~l~~~la~~e~  179 (243)
T PRK10866        121 DSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY--------PNSQ-------------YTTDATKRLVFLKDRLAKYEL  179 (243)
T ss_pred             hhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC--------cCCh-------------hHHHHHHHHHHHHHHHHHHHH
Confidence                           1   234556667776642        3221             1222222222211    1111


Q ss_pred             CcchhhhccCChHHHHHHHHHHHHc--CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256          132 NANTLLCKKTKLVEANRLLELMMQR--GLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMAR  190 (363)
Q Consensus       132 ~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (363)
                      .....+.+.|.+..|..-++.+++.  +.+........++.+|...|..++|..+...+..
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            1112455666777777777777654  2233455677788999999999999988776543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.016  Score=44.87  Aligned_cols=148  Identities=7%  Similarity=-0.105  Sum_probs=106.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      +.+.++..+...|.+.-....+.+.++...+.++...+.|++.-.+.|+.+.|...|++..+..  ..+     .++...
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~--~kL-----~~~q~~  251 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVT--QKL-----DGLQGK  251 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH--hhh-----hccchh
Confidence            4566777777788888899999999988767788889999999999999999998888765432  111     122223


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      ..+.......|.-.+++..|...+.++.... +.|+...|.-.-+..-.|+...|.+.++.|...  .|...+-++++
T Consensus       252 ~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  252 IMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             HHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            3333344455667788999999998888765 556666665555556679999999999999886  45555555443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.56  E-value=0.0054  Score=50.58  Aligned_cols=278  Identities=15%  Similarity=0.073  Sum_probs=155.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcc----cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           33 GFCMEGNIRDASQLVKKMATFGCRPNVT----TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        33 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      -+++.|+......+|+..++.|- -|..    +|..|..+|.-.+++++|++....=+......+. -.-...+...|..
T Consensus        26 RLck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgd-klGEAKssgNLGN  103 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGD-KLGEAKSSGNLGN  103 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcc-hhccccccccccc
Confidence            47889999999999999998873 3433    4566667777777888888765421110000000 0011222223333


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC-----------
Q 044256          109 GLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK-----------  177 (363)
Q Consensus       109 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-----------  177 (363)
                      .+--.|.+++|.-...+-..                -|.++=+++.+.      ..+-.+...|-..|+           
T Consensus       104 tlKv~G~fdeA~~cc~rhLd----------------~areLgDrv~e~------RAlYNlgnvYhakGk~~g~~~pee~g  161 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLD----------------FARELGDRVLES------RALYNLGNVYHAKGKCTGLEAPEEKG  161 (639)
T ss_pred             hhhhhcccchHHHHHHHHhH----------------HHHHHhHHHhhh------HHHhhhhhhhhhcccccCCCChhhcc
Confidence            34444555555544333221                111111111111      122223333332221           


Q ss_pred             ---------HHHHHHHHHHHH----HcCC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC-C
Q 044256          178 ---------VNVAIALFDSMA----RKGF-MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV-P  242 (363)
Q Consensus       178 ---------~~~a~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~  242 (363)
                               ++.|.++|.+=.    +.|- -.--..|..|-..|.-.|+++.|+...+.-+...     +   +-|-+ .
T Consensus       162 ~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia-----~---efGDrAa  233 (639)
T KOG1130|consen  162 AFNAEVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIA-----Q---EFGDRAA  233 (639)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHH-----H---HhhhHHH
Confidence                     233444443211    1110 0122456667777778899999987655432211     1   11111 2


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----c-CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC-----CCCc
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----N-CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK-----NLVA  312 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~  312 (363)
                      ....+..+..++.-.|+++.|.+.|+.....    | -.....+.-+|...|.-..++++|+.++++-...     +..-
T Consensus       234 eRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriG  313 (639)
T KOG1130|consen  234 ERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIG  313 (639)
T ss_pred             HHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            2346777888899999999999999875432    2 1234455667888888888899999887764321     1122


Q ss_pred             cHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          313 DVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       313 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ....+.+|..+|...|..++|+.+.+.-++
T Consensus       314 e~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  314 ELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             hHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            567889999999999999999988776554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.54  E-value=0.0013  Score=47.25  Aligned_cols=85  Identities=8%  Similarity=-0.130  Sum_probs=73.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..+|.-+...  .|.++.-|..|..++-..+++++|+..|......+ .-|...+-....++...|+.+.|..
T Consensus        50 ~Gk~~eA~~~F~~L~~~--d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         50 QGRLDEAETFFRFLCIY--DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             CCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHHH
Confidence            48999999999999885  66688899999999999999999999999877665 3455556678899999999999999


Q ss_pred             HHHHHHhc
Q 044256           81 LHQEMVNG   88 (363)
Q Consensus        81 ~~~~~~~~   88 (363)
                      .|+..++.
T Consensus       127 ~f~~a~~~  134 (165)
T PRK15331        127 CFELVNER  134 (165)
T ss_pred             HHHHHHhC
Confidence            99999873

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.54  E-value=0.003  Score=50.26  Aligned_cols=100  Identities=10%  Similarity=-0.037  Sum_probs=77.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      ..|...+..+.+.|++++|+..|+.+.+.  .|+.    ..+..+..+|...|++++|...|+.+.+..+.    .+...
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~----s~~~~  217 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPK----SPKAA  217 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC----Ccchh
Confidence            34666665557789999999999999987  4554    46777889999999999999999999875311    12234


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256          101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus       101 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      ..+-.+..++...|+.+.|..+|+++.+..
T Consensus       218 dAl~klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        218 DAMFKVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            455556777888999999999999998763

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.52  E-value=0.00085  Score=41.76  Aligned_cols=54  Identities=15%  Similarity=-0.043  Sum_probs=28.3

Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          288 GCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       288 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .|.+.+++++|.++++.+...+ +.++..|.....++.+.|++++|.+.|++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3445555555555555555543 33444455555555555555555555555554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.46  E-value=0.023  Score=41.64  Aligned_cols=132  Identities=13%  Similarity=0.066  Sum_probs=92.4

Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch
Q 044256           56 RPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT  135 (363)
Q Consensus        56 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  135 (363)
                      -|++..--.|..+....|+..+|...|++....-      ...|....-.+.++....+++..|...++.+.+..+.   
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~------fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa---  156 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGI------FAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA---  156 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccc------cCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc---
Confidence            5666666677788888888888888888887655      6677777778888888888888888888887765321   


Q ss_pred             hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 044256          136 LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE  215 (363)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  215 (363)
                                           +-.||  +.-.+.+.+...|.+..|+.-|+.....  -|+...-......+.+.|+.++
T Consensus       157 ---------------------~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~e  211 (251)
T COG4700         157 ---------------------FRSPD--GHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLRE  211 (251)
T ss_pred             ---------------------cCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhH
Confidence                                 11344  3445678888889999999999988877  3444443333444667777776


Q ss_pred             HHHHHH
Q 044256          216 AMNVSR  221 (363)
Q Consensus       216 a~~~~~  221 (363)
                      +..-+.
T Consensus       212 a~aq~~  217 (251)
T COG4700         212 ANAQYV  217 (251)
T ss_pred             HHHHHH
Confidence            654433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.46  E-value=0.03  Score=42.99  Aligned_cols=172  Identities=18%  Similarity=0.153  Sum_probs=98.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      +..+-.....+...|++.+|...|+.+...  -|+    ....-.++.++.+.|+++.|...++..++.-+.     .|.
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~--~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~-----~~~   77 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDR--YPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN-----SPK   77 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT------TT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-----Ccc
Confidence            444555566677888888888888888776  233    224455677788888888888888888775311     111


Q ss_pred             hhhHHHHHHHHHh-------------cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHH
Q 044256          100 VFCYGSLIDGLCK-------------DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYT  166 (363)
Q Consensus       100 ~~~~~~ll~~~~~-------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (363)
                       ..+...+.+.+.             .+....|...|+.+++.-+.       +.-..+|...+..+...-    ...--
T Consensus        78 -~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~-------S~y~~~A~~~l~~l~~~l----a~~e~  145 (203)
T PF13525_consen   78 -ADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPN-------SEYAEEAKKRLAELRNRL----AEHEL  145 (203)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TT-------STTHHHHHHHHHHHHHHH----HHHHH
T ss_pred             -hhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcC-------chHHHHHHHHHHHHHHHH----HHHHH
Confidence             112222222111             12245677777777765332       223344444444333210    01122


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH----hHHHHHHHHHHhcCChhHH
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARKGFMPDV----FSYSVLINGYCKNFNVEEA  216 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a  216 (363)
                      .+...|.+.|.+..|..-++.+.+.  -|++    .....++.+|.+.|..+.+
T Consensus       146 ~ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  146 YIARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            3567899999999999999999887  2333    3456777888888888755

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.45  E-value=0.036  Score=45.93  Aligned_cols=265  Identities=11%  Similarity=0.002  Sum_probs=158.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-------Ccchhhh
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI-------NANTLLC  138 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~  138 (363)
                      ...+.+..++..|+..+...++..       +.+..-|..-+..+...|++++|.--.++-.+...       .+...+.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~-------pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~  128 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMC-------PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHL  128 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhC-------ccchhhhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhh
Confidence            345566778889999999998865       55666777777777777888877766655443221       1222333


Q ss_pred             ccCChHHHHHHHH---------------HHHHcCC-CCchhhHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHH
Q 044256          139 KKTKLVEANRLLE---------------LMMQRGL-NPVIFTYTPLL-NGYCLVGKVNVAIALFDSMARKGFMPDVFSYS  201 (363)
Q Consensus       139 ~~~~~~~a~~~~~---------------~~~~~~~-~~~~~~~~~li-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  201 (363)
                      ..++..+|...++               .+..... +|...++..+- .++.-.|+.++|..+--...+..   ....+.
T Consensus       129 a~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld---~~n~~a  205 (486)
T KOG0550|consen  129 ALSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD---ATNAEA  205 (486)
T ss_pred             hhHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc---cchhHH
Confidence            3334444443332               1111111 23333343332 34455788898888877766652   223344


Q ss_pred             HHHHH--HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---cC
Q 044256          202 VLING--YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE-TFTCNIFIDGLCKNGHVLEVMELFPTLEIS---NC  275 (363)
Q Consensus       202 ~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~  275 (363)
                      ..+++  +.-.++.+.+...|.+.+..++..  .........|+ ...+..=..-..+.|++..|.+.|.+.+..   +.
T Consensus       206 l~vrg~~~yy~~~~~ka~~hf~qal~ldpdh--~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~  283 (486)
T KOG0550|consen  206 LYVRGLCLYYNDNADKAINHFQQALRLDPDH--QKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNK  283 (486)
T ss_pred             HHhcccccccccchHHHHHHHhhhhccChhh--hhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCcccc
Confidence            44443  345778888888888877655200  00000000000 001111122346789999999999998865   34


Q ss_pred             cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .|+...|.....+..+.|+..+|+.--++....+ +.-+..|..-..++.-.++|++|.+-|+...+.
T Consensus       284 ~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  284 KTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             chhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5677778888888889999999999999888652 111222333344667789999999999998775

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.43  E-value=0.025  Score=41.46  Aligned_cols=104  Identities=7%  Similarity=-0.087  Sum_probs=84.1

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .| ++.--..|..++...|+..+|...|++...--.--|....-.+.++....+++..|...++.+.+....     ..+
T Consensus        86 Ap-Tvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa-----~r~  159 (251)
T COG4700          86 AP-TVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA-----FRS  159 (251)
T ss_pred             ch-hHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc-----cCC
Confidence            56 777777889999999999999999999886544556777778888888999999999999999886521     123


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      +.+.-.+.+.+...|.++.|...|+.....
T Consensus       160 pd~~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         160 PDGHLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             CCchHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            445566778889999999999999988864

>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=97.42  E-value=0.004  Score=43.22  Aligned_cols=81  Identities=11%  Similarity=-0.010  Sum_probs=60.6

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh---------------ccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEI---------------SNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      |..++..++.++++.|+++....+.+..-.               ....|+..+..+++.+|+..|++..|.++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            456788899999999999988888877521               12346777778888888888888888888877764


Q ss_pred             -CCCCccHHHHHHHHHH
Q 044256          308 -KNLVADVVAYNILIHA  323 (363)
Q Consensus       308 -~~~~~~~~~~~~li~~  323 (363)
                       .+++.+...|..|+.-
T Consensus        81 ~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HcCCCCCHHHHHHHHHH
Confidence             4666677788877763

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

>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=97.42  E-value=0.0014  Score=47.31  Aligned_cols=71  Identities=13%  Similarity=0.121  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh-----CCCCccHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC-----KNLVADVVAY  317 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  317 (363)
                      +...++..+...|++++|..+.+.+.... |.+...|..+|.+|...|+...|.+.|+.+..     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            55667788889999999999999999887 88899999999999999999999999998853     4888877653

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.41  E-value=0.0061  Score=48.58  Aligned_cols=103  Identities=11%  Similarity=-0.071  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch---HHHHHHHHHHHHhcCChHHHHHHHHHhhhCC--CCccHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF---VEIFNSLIRGCCKFGIFEIASELFNKLSCKN--LVADVVAYNI  319 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~  319 (363)
                      ..|...+....+.|++++|...|+.+.+.. |-+   +..+-.+..+|...|++++|...|+.+...-  -+.....+..
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            456666655567799999999999998763 222   3577788999999999999999999998652  1223556666


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCHH
Q 044256          320 LIHALGKEGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       320 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      +..++...|++++|..+|+++++.  .|+..
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            777888999999999999999984  45544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.37  E-value=0.06  Score=44.42  Aligned_cols=83  Identities=14%  Similarity=0.117  Sum_probs=61.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhh--HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVT--FNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNL   77 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~   77 (363)
                      .|+++.|.+-|+.|..   .| ....  ...|.-...+.|..+.|.+.-+..-..  -|. .-.+...+...+..|+|+.
T Consensus       133 eG~~~~Ar~kfeAMl~---dP-EtRllGLRgLyleAqr~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~  206 (531)
T COG3898         133 EGDYEDARKKFEAMLD---DP-ETRLLGLRGLYLEAQRLGAREAARHYAERAAEK--APQLPWAARATLEARCAAGDWDG  206 (531)
T ss_pred             cCchHHHHHHHHHHhc---Ch-HHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHH
Confidence            4889999999999987   45 3222  333334446788888888888877654  344 3467788999999999999


Q ss_pred             HHHHHHHHHhcc
Q 044256           78 TLKLHQEMVNGM   89 (363)
Q Consensus        78 a~~~~~~~~~~~   89 (363)
                      |+++++.-++..
T Consensus       207 AlkLvd~~~~~~  218 (531)
T COG3898         207 ALKLVDAQRAAK  218 (531)
T ss_pred             HHHHHHHHHHHH
Confidence            999999877654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.34  E-value=0.0019  Score=40.12  Aligned_cols=57  Identities=7%  Similarity=0.037  Sum_probs=42.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           32 KGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        32 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      ..|.+.+++++|+++++.+...+ +.+...|.....++.+.|++++|...|+...+..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            45677888888888888887764 3455667777777888888888888888887743

>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=97.28  E-value=0.00059  Score=43.15  Aligned_cols=68  Identities=12%  Similarity=0.164  Sum_probs=49.7

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      .+|+.+..+|...|++++|+..|++..+.....+. -.| ...+++.+..++...|++++|++.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGD-DHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35677778888888888888888877754221211 123 267888999999999999999999998764

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.24  E-value=0.057  Score=41.49  Aligned_cols=174  Identities=11%  Similarity=0.012  Sum_probs=89.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHH----HHHHHHHHHcCCCcchhhh
Q 044256           63 DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQT----KDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~  138 (363)
                      -.....+...|++.+|...|+.+...-+.    .+--....-.++.++.+.|+++.|    .++.+........+.. +.
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~----s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A-~Y   83 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPN----SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYA-LY   83 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TT----STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHH-HH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC----ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhH-HH
Confidence            34455667889999999999999986421    122234556678888999997654    3333332221111111 00


Q ss_pred             ccCChHHHHHHHHHHHHc---CCCC-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 044256          139 KKTKLVEANRLLELMMQR---GLNP-----VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN  210 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~---~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  210 (363)
                           ..+...+......   ...+     -...+..++.-|=...-...|...+..+.+.    =...--.+...|.+.
T Consensus        84 -----~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~  154 (203)
T PF13525_consen   84 -----MLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKR  154 (203)
T ss_dssp             -----HHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCT
T ss_pred             -----HHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHc
Confidence                 0111111111100   0000     0123444555555555555665555554432    111122355678899


Q ss_pred             CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChH----HHHHHHHHHHhcCCHHHHH
Q 044256          211 FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETF----TCNIFIDGLCKNGHVLEVM  264 (363)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~  264 (363)
                      |.+..|..-++.+++.-              |++.    ....++.+|.+.|..+.+.
T Consensus       155 ~~y~aA~~r~~~v~~~y--------------p~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENY--------------PDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             T-HHHHHHHHHHHHHHS--------------TTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             ccHHHHHHHHHHHHHHC--------------CCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99999998888877654              4433    4466778888888877443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.24  E-value=0.087  Score=43.53  Aligned_cols=275  Identities=9%  Similarity=0.005  Sum_probs=134.0

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHH--HhcCCHHHHHHHHHHHHhcCCCCCccc--HHHHHHHHHhcCChhH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGF--CMEGNIRDASQLVKKMATFGCRPNVTT--CDTLITGLRRTGNMNL   77 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~l~~~~~~~~~~~~   77 (363)
                      ||-..|.++-.+..+. +.. |......++.+-  .-.|+++.|.+-|+-|...   |....  ...|.-..-+.|..+.
T Consensus        98 Gda~lARkmt~~~~~l-lss-DqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          98 GDASLARKMTARASKL-LSS-DQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             CchHHHHHHHHHHHhh-hhc-cchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            4445555554443321 111 444444444432  3457888888888888752   22221  1122222346677777


Q ss_pred             HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cch-------------hhhccCCh
Q 044256           78 TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN-ANT-------------LLCKKTKL  143 (363)
Q Consensus        78 a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~-------------~~~~~~~~  143 (363)
                      |.+.-+..-...       +.-...+.+.+...+..|+|+.|+++++.-+...+. ++.             ...-..+.
T Consensus       173 Ar~yAe~Aa~~A-------p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp  245 (531)
T COG3898         173 ARHYAERAAEKA-------PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADP  245 (531)
T ss_pred             HHHHHHHHHhhc-------cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCCh
Confidence            777777766542       333567777888888888888888888776654322 221             00111223


Q ss_pred             HHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          144 VEANRLLELMMQRGLNPVIF-TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       144 ~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      ..|...-.+..+  +.|+.. .-..-..++.+.|+..++-.+++.+-+..  |.+..+...  .+.+.|+  .++.-+++
T Consensus       246 ~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~e--PHP~ia~lY--~~ar~gd--ta~dRlkR  317 (531)
T COG3898         246 ASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAE--PHPDIALLY--VRARSGD--TALDRLKR  317 (531)
T ss_pred             HHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcC--CChHHHHHH--HHhcCCC--cHHHHHHH
Confidence            333333222222  233321 11222355666666666666666666553  333222221  1223333  22222222


Q ss_pred             HHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh-cCChHHHHHH
Q 044256          223 MILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK-FGIFEIASEL  301 (363)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~  301 (363)
                      ..      -+..|+.    .+......+..+....|++..|..--+.....  .|....|..|.+.-.. .|+-.++...
T Consensus       318 a~------~L~slk~----nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~w  385 (531)
T COG3898         318 AK------KLESLKP----NNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQW  385 (531)
T ss_pred             HH------HHHhcCc----cchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHH
Confidence            21      1112211    12333444455555566666655554444432  4555566555554433 3666666666


Q ss_pred             HHHhhhC
Q 044256          302 FNKLSCK  308 (363)
Q Consensus       302 ~~~~~~~  308 (363)
                      +.+....
T Consensus       386 lAqav~A  392 (531)
T COG3898         386 LAQAVKA  392 (531)
T ss_pred             HHHHhcC
Confidence            6665543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.23  E-value=0.051  Score=49.20  Aligned_cols=69  Identities=14%  Similarity=0.074  Sum_probs=45.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHH----HHHHHHHcCCCCCHHHHHHH
Q 044256          283 NSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY----LLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       283 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~----~~~~m~~~g~~p~~~~~~~l  355 (363)
                      --++..+.+..+.+.+..+.+..-+.    ++..|..++..+++.+..+.-.+    +++.......-|......+|
T Consensus       709 ~dl~~~~~q~~d~E~~it~~~~~g~~----~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~L  781 (933)
T KOG2114|consen  709 QDLMLYFQQISDPETVITLCERLGKE----DPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQIL  781 (933)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHhCcc----ChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHH
Confidence            34566677777888887777766543    78899999999999886555444    44444444444544444433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.19  E-value=0.0078  Score=43.31  Aligned_cols=96  Identities=9%  Similarity=0.001  Sum_probs=75.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      .......-+-..|++++|..+|.-+...+ .-+..-|..|..++-..+++++|...|......+       ..|+..+-.
T Consensus        39 ~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-------~~dp~p~f~  110 (165)
T PRK15331         39 GLYAHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-------KNDYRPVFF  110 (165)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-------cCCCCccch
Confidence            33444455668899999999999888765 3355556777788888899999999999887754       455666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ...++...|+.+.|...|+...+.
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhC
Confidence            788999999999999999988863

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.16  E-value=0.091  Score=46.36  Aligned_cols=223  Identities=15%  Similarity=0.086  Sum_probs=117.0

Q ss_pred             HHHHHHHHHhcCCH--HHHHHHHHHHHHcCCCcch-----hhhccCChHHHHHHHHHHHHcCCCCchhhHHH-----HHH
Q 044256          103 YGSLIDGLCKDRLV--DQTKDLFMEMKDKGINANT-----LLCKKTKLVEANRLLELMMQRGLNPVIFTYTP-----LLN  170 (363)
Q Consensus       103 ~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~-----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----li~  170 (363)
                      ++..=.+|.+.++.  -+...-++++.++|-.|+.     .+.-.|.+.+|-++|.+.-..+-.  ...|+-     ...
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLlA~~~Ay~gKF~EAAklFk~~G~enRA--lEmyTDlRMFD~aQ  678 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLLLADVFAYQGKFHEAAKLFKRSGHENRA--LEMYTDLRMFDYAQ  678 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHHHHHHHhhhhHHHHHHHHHHcCchhhH--HHHHHHHHHHHHHH
Confidence            33444455554443  3444455677777777776     455677777777777653222100  011111     122


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHH
Q 044256          171 GYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIF  250 (363)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  250 (363)
                      -+...|..++-..+.++-.+..  -+..--.+....+...|+.++|..+..+   .|..+++-++...--..+..+...+
T Consensus       679 E~~~~g~~~eKKmL~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i~~d---~gW~d~lidI~rkld~~ere~l~~~  753 (1081)
T KOG1538|consen  679 EFLGSGDPKEKKMLIRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEICGD---HGWVDMLIDIARKLDKAEREPLLLC  753 (1081)
T ss_pred             HHhhcCChHHHHHHHHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhhhhc---ccHHHHHHHHHhhcchhhhhHHHHH
Confidence            2333343333333332221110  0111111233445667888887765432   1111122222111112334455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH-----------HHHHH
Q 044256          251 IDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV-----------VAYNI  319 (363)
Q Consensus       251 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~  319 (363)
                      ...+.+...+.-|-++|.+|-+.         ..+++.....+++.+|..+-+...+.  .|++           .-|..
T Consensus       754 a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeE  822 (1081)
T KOG1538|consen  754 ATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEE  822 (1081)
T ss_pred             HHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHH
Confidence            55555666777888888776533         34667778889999999888877654  3332           22333


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHc
Q 044256          320 LIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       320 li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .=.+|.++|+-.+|.++++++...
T Consensus       823 AqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  823 AQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHhcchHHHHHHHHHhhhh
Confidence            446788889999999998888654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.15  E-value=0.036  Score=45.98  Aligned_cols=288  Identities=13%  Similarity=-0.012  Sum_probs=156.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCC--chhhHHHHHHHHHhcCCHHHHHHHHHH--HHhc--CCC-CCcccHHHHHHHHHhcC
Q 044256            1 TSKVLGALMAFGSFIRRCYRPL--NDVTFNSLIKGFCMEGNIRDASQLVKK--MATF--GCR-PNVTTCDTLITGLRRTG   73 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~--m~~~--~~~-~~~~~~~~l~~~~~~~~   73 (363)
                      .|+....+.+|+.+++.|..-.  -..+|..|..+|.-.+++++|++....  .+.+  |-+ -...+...|...+--.|
T Consensus        30 ~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G  109 (639)
T KOG1130|consen   30 MGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKG  109 (639)
T ss_pred             ccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhc
Confidence            3677888999999999876532  234688888888889999999986542  1111  101 11223334455555566


Q ss_pred             ChhHHHHHHHHH----HhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHH
Q 044256           74 NMNLTLKLHQEM----VNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRL  149 (363)
Q Consensus        74 ~~~~a~~~~~~~----~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  149 (363)
                      .+++|.-.-.+-    .+.+.     -......+-.+...|...|+.-....    -.+.|..+..   ....++.|.++
T Consensus       110 ~fdeA~~cc~rhLd~areLgD-----rv~e~RAlYNlgnvYhakGk~~g~~~----pee~g~f~~e---v~~al~~Av~f  177 (639)
T KOG1130|consen  110 AFDEALTCCFRHLDFARELGD-----RVLESRALYNLGNVYHAKGKCTGLEA----PEEKGAFNAE---VTSALENAVKF  177 (639)
T ss_pred             ccchHHHHHHHHhHHHHHHhH-----HHhhhHHHhhhhhhhhhcccccCCCC----hhhcccccHH---HHHHHHHHHHH
Confidence            666665433221    11110     01112234445555544433100000    0000000000   00112223333


Q ss_pred             HHHHH----HcC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH----HcCCC-CcHhHHHHHHHHHHhcCChhHHHHH
Q 044256          150 LELMM----QRG-LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMA----RKGFM-PDVFSYSVLINGYCKNFNVEEAMNV  219 (363)
Q Consensus       150 ~~~~~----~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~  219 (363)
                      |..-+    +.| --.....|..|.+.|.-.|+++.|+...+.-.    +.|-. .....++.+..++.-.|+++.|.+.
T Consensus       178 y~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~eh  257 (639)
T KOG1130|consen  178 YMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEH  257 (639)
T ss_pred             HHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHH
Confidence            32211    111 01123456667777777889999887665322    22321 1335677788888889999999998


Q ss_pred             HHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----c-CcchHHHHHHHHHHHHhcCC
Q 044256          220 SREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----N-CELFVEIFNSLIRGCCKFGI  294 (363)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~  294 (363)
                      ++......     .++...  .......-.|...|.-..++++|+.++.+-...    + ..-....+-+|..+|...|.
T Consensus       258 YK~tl~LA-----ielg~r--~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~  330 (639)
T KOG1130|consen  258 YKLTLNLA-----IELGNR--TVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGE  330 (639)
T ss_pred             HHHHHHHH-----HHhcch--hHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhh
Confidence            88754322     111111  123344556777777778889998887664321    1 12245678889999999999


Q ss_pred             hHHHHHHHHHhhh
Q 044256          295 FEIASELFNKLSC  307 (363)
Q Consensus       295 ~~~a~~~~~~~~~  307 (363)
                      .++|+.+.+...+
T Consensus       331 h~kAl~fae~hl~  343 (639)
T KOG1130|consen  331 HRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999887765543

>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=97.13  E-value=0.013  Score=40.75  Aligned_cols=100  Identities=14%  Similarity=0.098  Sum_probs=74.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      |..++..+|.++++.|+.+....+++..=..++.....  . +.         .-......|+..+..+++.+|+..|++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~--~-~~---------~~~~spl~Pt~~lL~AIv~sf~~n~~i   68 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKK--E-GD---------YPPSSPLYPTSRLLIAIVHSFGYNGDI   68 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccc--c-Cc---------cCCCCCCCCCHHHHHHHHHHHHhcccH
Confidence            45688999999999999999999987764332221110  0 00         111234679999999999999999999


Q ss_pred             HHHHHHHHHHHHc-CCCCcHhHHHHHHHHHHhc
Q 044256          179 NVAIALFDSMARK-GFMPDVFSYSVLINGYCKN  210 (363)
Q Consensus       179 ~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~  210 (363)
                      ..|.++.+...+. +++.+..+|..|+.-....
T Consensus        69 ~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   69 FSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            9999999988665 7777889999999855443

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

>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=97.08  E-value=0.0024  Score=40.35  Aligned_cols=61  Identities=16%  Similarity=0.115  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhC----CC-Ccc-HHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          281 IFNSLIRGCCKFGIFEIASELFNKLSCK----NL-VAD-VVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       281 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      +++.+...|...|++++|+..|++..+.    |- .|+ ..++..+..++...|++++|++.+++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444444444444444444444321    10 011 2334444445555555555555555443

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.08  E-value=0.13  Score=42.47  Aligned_cols=106  Identities=19%  Similarity=0.180  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF  278 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  278 (363)
                      +.+.-+.-+...|+...|.++-.+.                -.|+...|-..+.+++..+++++-.++-..      +-+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----------------kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKs  236 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----------------KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKS  236 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----------------CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCC
Confidence            4445555666778777776553332                247888888899999999999887776432      123


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                      +.-|..++.+|.+.|+..+|..++.++.      +    ..-+..|.+.|++.+|.+.
T Consensus       237 PIGyepFv~~~~~~~~~~eA~~yI~k~~------~----~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  237 PIGYEPFVEACLKYGNKKEASKYIPKIP------D----EERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCChHHHHHHHHHCCCHHHHHHHHHhCC------h----HHHHHHHHHCCCHHHHHHH
Confidence            5678888999999999999998888732      1    3445667788888887655

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

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.02  E-value=0.012  Score=49.67  Aligned_cols=67  Identities=9%  Similarity=-0.002  Sum_probs=59.4

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc----cHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT----TCDTLITGLRRTGNMNLTLKLHQEMVNG   88 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~   88 (363)
                      .|.++..|+.+..+|.+.|++++|+..|++.++.  .|+..    +|..+..+|...|+.++|+..+++.++.
T Consensus        71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5668899999999999999999999999998886  56643    5889999999999999999999999874

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.02  E-value=0.11  Score=40.59  Aligned_cols=141  Identities=13%  Similarity=-0.053  Sum_probs=100.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHH
Q 044256          201 SVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVE  280 (363)
Q Consensus       201 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  280 (363)
                      +.++..+.-.+.+.-....+++.++            ...+.++.....+++.-...|+.+.|...|+...+..-..|..
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~------------~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~  248 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIK------------YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGL  248 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHH------------hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhcc
Confidence            4455555556777777655555544            3345678888899999999999999999999876553344444


Q ss_pred             HHHH-----HHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 044256          281 IFNS-----LIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       281 ~~~~-----li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      ..+.     ....|.-++++..|...++++...+ +.|+...|.-.-+..-.|+...|++.++.|.+  ..|...+-+++
T Consensus       249 q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~--~~P~~~l~es~  325 (366)
T KOG2796|consen  249 QGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQ--QDPRHYLHESV  325 (366)
T ss_pred             chhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhc--cCCccchhhhH
Confidence            4433     3345667789999999999998875 44677777666677778999999999999998  45666555544


Q ss_pred             H
Q 044256          356 M  356 (363)
Q Consensus       356 l  356 (363)
                      +
T Consensus       326 ~  326 (366)
T KOG2796|consen  326 L  326 (366)
T ss_pred             H
Confidence            3

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.11  Score=41.39  Aligned_cols=52  Identities=13%  Similarity=0.132  Sum_probs=25.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMV   86 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   86 (363)
                      ....|++.+|..+|....... +-+...-..+..+|...|+.+.|..++..+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            344555555555555554432 1223334444555555555555555555444

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.85  E-value=0.32  Score=43.54  Aligned_cols=200  Identities=17%  Similarity=0.132  Sum_probs=99.1

Q ss_pred             cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---hhhccCChHHHHHHHHHHHHcCCCCchhhH-------
Q 044256           96 YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---LLCKKTKLVEANRLLELMMQRGLNPVIFTY-------  165 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------  165 (363)
                      ++.+......+..++.+.|.-++|.+.|-+..    .|..   .+...++|.+|.++-....-    |.+.+.       
T Consensus       848 Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pkaAv~tCv~LnQW~~avelaq~~~l----~qv~tliak~aaq  919 (1189)
T KOG2041|consen  848 LPEDSELLPVMADMFTSVGMCDQAVEAYLRRS----LPKAAVHTCVELNQWGEAVELAQRFQL----PQVQTLIAKQAAQ  919 (1189)
T ss_pred             cCcccchHHHHHHHHHhhchHHHHHHHHHhcc----CcHHHHHHHHHHHHHHHHHHHHHhccc----hhHHHHHHHHHHH
Confidence            46667777888888888888888877764432    1111   44555666666655433211    111111       


Q ss_pred             -------HHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCcHh----HHHHHH-HHH----------HhcCChhHHHHH
Q 044256          166 -------TPLLNGYCLVGKVNVAIALFDSMARK----GFMPDVF----SYSVLI-NGY----------CKNFNVEEAMNV  219 (363)
Q Consensus       166 -------~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~----~~~~l~-~~~----------~~~~~~~~a~~~  219 (363)
                             .--|..+.+.|.+-.|-+++.+|.+.    +.+|-..    ...+++ .-+          -..|..++|..+
T Consensus       920 ll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~l  999 (1189)
T KOG2041|consen  920 LLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATDL  999 (1189)
T ss_pred             HHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhhh
Confidence                   12345667777777777777777543    3333221    111111 111          124555555554


Q ss_pred             HHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHhcCChHHH
Q 044256          220 SREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS-NCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      ++........++.+..-+   -.....|..|.+--...|.++.|++.--.+.+. .+-|...+|+.|.-+-+....+...
T Consensus      1000 les~~l~~~~ri~~n~Wr---gAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtC 1076 (1189)
T KOG2041|consen 1000 LESGLLAEQSRILENTWR---GAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTC 1076 (1189)
T ss_pred             hhhhhhhhHHHHHHhhhh---hHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhh
Confidence            444332221122221111   022334444555555667777776643333322 2345566777666655555555555


Q ss_pred             HHHHHHhh
Q 044256          299 SELFNKLS  306 (363)
Q Consensus       299 ~~~~~~~~  306 (363)
                      .+.|-++.
T Consensus      1077 SKAfmkLe 1084 (1189)
T KOG2041|consen 1077 SKAFMKLE 1084 (1189)
T ss_pred             HHHHHHHH
Confidence            55444443

>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=96.85  E-value=0.08  Score=36.45  Aligned_cols=64  Identities=22%  Similarity=0.289  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  310 (363)
                      .+...+.+....|+-++-.+++..+.+.+ .+++...-.+..+|.+.|+..++.+++.++-+.|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34445666667777777777777766544 56666666777777777777777777777776664

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.029  Score=46.42  Aligned_cols=108  Identities=16%  Similarity=-0.001  Sum_probs=82.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc-----cC---------cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHH
Q 044256          251 IDGLCKNGHVLEVMELFPTLEIS-----NC---------ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVA  316 (363)
Q Consensus       251 l~~~~~~~~~~~a~~~~~~~~~~-----~~---------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  316 (363)
                      ...+.+.|++..|...|++++..     +.         ..-..++..|..+|.+.+++..|++.-.+.+..+ ++|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            34567888888888888775532     11         1123456778888889999999999999988876 667877


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          317 YNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       317 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      .-.-..++...|+++.|...|+++++  +.|+......=|..|.+
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHH
Confidence            77778899999999999999999998  78887777766665543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.78  E-value=0.33  Score=42.69  Aligned_cols=163  Identities=18%  Similarity=0.151  Sum_probs=110.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH------hHHHHHHHHHHh----cCChhHHHHHHHHHHHhhHHHHHHH
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARKGFMPDV------FSYSVLINGYCK----NFNVEEAMNVSREMILNGFKKIFNE  234 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  234 (363)
                      +..+++...=.||-+.+++.+....+.+---.+      -.|..++..++.    ....+.|.+++..+.+.-       
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y-------  263 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY-------  263 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC-------
Confidence            455666777789999999999887664211122      223333433332    456677887777776654       


Q ss_pred             hHhcCCCCChHHHHHHH-HHHHhcCCHHHHHHHHHHHHhcc--C-cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 044256          235 MKLCNVVPETFTCNIFI-DGLCKNGHVLEVMELFPTLEISN--C-ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       235 ~~~~~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~--~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  310 (363)
                             |+...|...- +.+...|++++|++.|+......  . ......+--+...+.-.+++++|.+.|..+.+.. 
T Consensus       264 -------P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-  335 (468)
T PF10300_consen  264 -------PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-  335 (468)
T ss_pred             -------CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-
Confidence                   7877765543 55667899999999999766421  1 2334456667777888999999999999999864 


Q ss_pred             CccHHHHHHHHH-HHHccCCh-------hHHHHHHHHHHH
Q 044256          311 VADVVAYNILIH-ALGKEGQI-------KKENYLLLSMEE  342 (363)
Q Consensus       311 ~~~~~~~~~li~-~~~~~g~~-------~~a~~~~~~m~~  342 (363)
                      ......|..+.. ++...|+.       ++|.++|.+...
T Consensus       336 ~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  336 KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            445566655554 44567777       888888888754

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.

>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=96.74  E-value=0.076  Score=45.94  Aligned_cols=133  Identities=16%  Similarity=0.126  Sum_probs=85.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      ..-.+.++..+.+.|-++.|+++-..-.            .-.....+.|+++.|.++.+            ..++...|
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~------------~~~~~~~W  350 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAK------------ELDDPEKW  350 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCC------------CCSTHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHH------------hcCcHHHH
Confidence            3447777777777887777777653322            23555667788887776543            23456789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      ..|.....+.|+++-|.+.|.+..                                    -+..|+-.|.-.|+.+.-.+
T Consensus       351 ~~Lg~~AL~~g~~~lAe~c~~k~~------------------------------------d~~~L~lLy~~~g~~~~L~k  394 (443)
T PF04053_consen  351 KQLGDEALRQGNIELAEECYQKAK------------------------------------DFSGLLLLYSSTGDREKLSK  394 (443)
T ss_dssp             HHHHHHHHHTTBHHHHHHHHHHCT-------------------------------------HHHHHHHHHHCT-HHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhhc------------------------------------CccccHHHHHHhCCHHHHHH
Confidence            999999999999988888887754                                    35566667777888877777


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          184 LFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      +.+.....|-      ++....++.-.|+.++..+++.+
T Consensus       395 l~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  395 LAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            7777666541      44444455556777777665544

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.72  E-value=0.37  Score=42.37  Aligned_cols=116  Identities=21%  Similarity=0.109  Sum_probs=73.7

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHH-HHHHHhcCCHHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHhcCChhHHH
Q 044256          142 KLVEANRLLELMMQRGLNPVIFTYTPL-LNGYCLVGKVNVAIALFDSMARKG---FMPDVFSYSVLINGYCKNFNVEEAM  217 (363)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~  217 (363)
                      +.+.|.++++.+.+.  -|+...|... .+.+...|+++.|++.|+......   .+.....+--+.-.+.-..+|++|.
T Consensus       248 ~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  248 PLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            334444444444443  4665555433 456677899999999999765421   1122334445566678889999999


Q ss_pred             HHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHH-HhcCCH-------HHHHHHHHHHHh
Q 044256          218 NVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL-CKNGHV-------LEVMELFPTLEI  272 (363)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~~-------~~a~~~~~~~~~  272 (363)
                      ..+..+.+..             ..+..+|..+..+| ...|+.       ++|.++|+++..
T Consensus       326 ~~f~~L~~~s-------------~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  326 EYFLRLLKES-------------KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHhcc-------------ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            8888887654             35556666665544 346766       888888887653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.70  E-value=0.05  Score=46.17  Aligned_cols=66  Identities=11%  Similarity=-0.104  Sum_probs=57.3

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH---HHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV---EIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      .+...++.+..+|...|++++|+..|++.++.+ +-+.   .+|..+..+|...|++++|.+.+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456789999999999999999999999998874 3333   45899999999999999999999999875

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.68  E-value=0.31  Score=40.87  Aligned_cols=169  Identities=13%  Similarity=-0.023  Sum_probs=99.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--cch---------hhhc---cCChHHHHHHHHHHHHcCCCCchhhH
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN--ANT---------LLCK---KTKLVEANRLLELMMQRGLNPVIFTY  165 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~---------~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (363)
                      ..+...++-+|-...+++...++.+.+......  ++.         ++.+   .|+.++|++++..+......++..+|
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            334446666799999999999999999875211  111         4455   89999999999997776667888888


Q ss_pred             HHHHHHHHh---------cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          166 TPLLNGYCL---------VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       166 ~~li~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      ..+...|-.         ....++|+..|.+.-+.  .|+..+-..+...+...|...+...-++++.    ..+-..+.
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~----~~l~~llg  294 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIG----VKLSSLLG  294 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHH----HHHHHHHH
Confidence            888776643         12367788888766554  3554443333333334444322221111111    01111111


Q ss_pred             hcC---CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 044256          237 LCN---VVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN  274 (363)
Q Consensus       237 ~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  274 (363)
                      +.|   -..+--.+..++.++.-.|+.++|.+..++|.+..
T Consensus       295 ~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  295 RKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             hhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            122   12333445566666666777777777777776553

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

Probab=96.61  E-value=0.03  Score=43.97  Aligned_cols=102  Identities=12%  Similarity=0.063  Sum_probs=55.6

Q ss_pred             CChHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHH
Q 044256          242 PETFTCNIFIDGLCK-----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVA  316 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  316 (363)
                      -|..+|...+..+..     .+.++=....++.|.+.|+.-|..+|+.|+..+-+..-.                | ...
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P-~nv  127 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------P-QNV  127 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------c-HHH
Confidence            355556666655543     245555566667777777777777777777665443211                1 011


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhc
Q 044256          317 YNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       317 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  362 (363)
                      +......|=+.  -+=++.++++|...|+.||..+-..|+++|.+.
T Consensus       128 fQ~~F~HYP~Q--Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~  171 (406)
T KOG3941|consen  128 FQKVFLHYPQQ--QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRW  171 (406)
T ss_pred             HHHHHhhCchh--hhHHHHHHHHHHHcCCCCchHHHHHHHHHhccc
Confidence            11111111111  123566777777777777777777777776654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.58  E-value=0.09  Score=43.65  Aligned_cols=98  Identities=15%  Similarity=0.030  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      ..++..+.-++.+.+++.+|++.-.+....+ ++|....-.=..+|...|+++.|+..|+++++.. +-|...-+.++.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l  334 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKL  334 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3467788888999999999999999999887 7888887778899999999999999999999874 3345555555555


Q ss_pred             HHccCChh-HHHHHHHHHHHc
Q 044256          324 LGKEGQIK-KENYLLLSMEEN  343 (363)
Q Consensus       324 ~~~~g~~~-~a~~~~~~m~~~  343 (363)
                      --+..+.. ...++|..|...
T Consensus       335 ~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            55544444 457788888754

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.57  E-value=0.39  Score=40.71  Aligned_cols=59  Identities=12%  Similarity=0.057  Sum_probs=43.8

Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      +...|++.++.-.-..+.+  +.|++.+|..+.-++....++++|..++..+     +|+..++++
T Consensus       472 Lysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~ds  530 (549)
T PF07079_consen  472 LYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDS  530 (549)
T ss_pred             HHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHH
Confidence            3466788877765555554  4789999998888888999999999988764     566665554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.56  E-value=0.24  Score=38.24  Aligned_cols=211  Identities=14%  Similarity=0.091  Sum_probs=106.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 044256          101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNV  180 (363)
Q Consensus       101 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  180 (363)
                      ..|.....+|-...++++|...+.+..+..-.-.+.+...+.++.|.-+.+++...  +.-...|+--...|..+|.++.
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gspdt  109 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVECGSPDT  109 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCcch
Confidence            34555556677778888888777766542111112333344455555555554443  1223345555666666676666


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          181 AIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       181 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      |-..+++.-+.                ..+-++++|++++.+...-     ++.=.+  ...-...+..+-..+.+...+
T Consensus       110 AAmaleKAak~----------------lenv~Pd~AlqlYqralav-----ve~~dr--~~ma~el~gk~sr~lVrl~kf  166 (308)
T KOG1585|consen  110 AAMALEKAAKA----------------LENVKPDDALQLYQRALAV-----VEEDDR--DQMAFELYGKCSRVLVRLEKF  166 (308)
T ss_pred             HHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHH-----Hhccch--HHHHHHHHHHhhhHhhhhHHh
Confidence            66555543321                2233444444444433211     000000  001112344444555666666


Q ss_pred             HHHHHHHHHHHhc----cCcch-HHHHHHHHHHHHhcCChHHHHHHHHHhhhC---CCCccHHHHHHHHHHHHccCChhH
Q 044256          261 LEVMELFPTLEIS----NCELF-VEIFNSLIRGCCKFGIFEIASELFNKLSCK---NLVADVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       261 ~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~  332 (363)
                      ++|-..+.+-...    .-.++ -..|...|-.+....++..|.+.++.-.+.   .-+-+..+...|+.+| ..|+.++
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~  245 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEE  245 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHH
Confidence            6665544432211    10111 234555666666677888888888774432   1233566777777776 4577777


Q ss_pred             HHHHH
Q 044256          333 ENYLL  337 (363)
Q Consensus       333 a~~~~  337 (363)
                      +..++
T Consensus       246 ~~kvl  250 (308)
T KOG1585|consen  246 IKKVL  250 (308)
T ss_pred             HHHHH
Confidence            66553

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.49  E-value=0.39  Score=39.72  Aligned_cols=124  Identities=15%  Similarity=0.172  Sum_probs=91.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP  242 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (363)
                      .+.+..|.-+...|+...|.++-.+..    .|+..-|-..+.+++..++|++-..+...                  +-
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------------------kK  235 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------------------KK  235 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------------------CC
Confidence            455666777888999988888866652    37899999999999999999987644221                  13


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      ++.-|..++.+|.+.|+..+|..+..++.     +     ..-+..|.++|++.+|.+.--+..      |...+..+..
T Consensus       236 sPIGyepFv~~~~~~~~~~eA~~yI~k~~-----~-----~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~  299 (319)
T PF04840_consen  236 SPIGYEPFVEACLKYGNKKEASKYIPKIP-----D-----EERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILK  299 (319)
T ss_pred             CCCChHHHHHHHHHCCCHHHHHHHHHhCC-----h-----HHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHH
Confidence            45779999999999999999999887722     1     445778899999999987654432      5555555444


Q ss_pred             HH
Q 044256          323 AL  324 (363)
Q Consensus       323 ~~  324 (363)
                      .+
T Consensus       300 ~~  301 (319)
T PF04840_consen  300 RC  301 (319)
T ss_pred             HC
Confidence            43

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.44  E-value=0.081  Score=42.74  Aligned_cols=116  Identities=10%  Similarity=0.090  Sum_probs=73.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHH----HHHHHHHhcCChh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCD----TLITGLRRTGNMN   76 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~----~l~~~~~~~~~~~   76 (363)
                      +|++.+|-..++++++.  .|.|..+++-.=.++.-+|+.+.-...++++...- .||...|.    ...-++...|-++
T Consensus       116 ~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w-n~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW-NADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhcccc-CCCCcHHHHHHHHHHhhHHHhccch
Confidence            35666777777777776  66566777777777777777777777777766431 23433322    2233345667777


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  126 (363)
                      +|.+.-++..+.+       +-|...-.++...+...|++.++.+...+-
T Consensus       193 dAEk~A~ralqiN-------~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  193 DAEKQADRALQIN-------RFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             hHHHHHHhhccCC-------CcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            7777777777654       455556666666667777777777666543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.41  E-value=0.063  Score=42.82  Aligned_cols=79  Identities=11%  Similarity=0.018  Sum_probs=46.4

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh-----CCCCccHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC-----KNLVADVVAYN  318 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  318 (363)
                      ..++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3355556666666666666666666666554 55566666666666666666666666665543     35555555555


Q ss_pred             HHHHH
Q 044256          319 ILIHA  323 (363)
Q Consensus       319 ~li~~  323 (363)
                      .+...
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.38  E-value=0.73  Score=41.72  Aligned_cols=109  Identities=12%  Similarity=0.082  Sum_probs=77.4

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      ..+.+--+.-+...|+-.+|.++-.+.                -.||-..|-.-+.+++..+++++-+++-+...     
T Consensus       684 dlSl~dTv~~li~~g~~k~a~ql~~~F----------------kipdKr~~wLk~~aLa~~~kweeLekfAkskk-----  742 (829)
T KOG2280|consen  684 DLSLHDTVTTLILIGQNKRAEQLKSDF----------------KIPDKRLWWLKLTALADIKKWEELEKFAKSKK-----  742 (829)
T ss_pred             cCcHHHHHHHHHHccchHHHHHHHHhc----------------CCcchhhHHHHHHHHHhhhhHHHHHHHHhccC-----
Confidence            334444455566677777776554433                24788888888899999999988777655433     


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYL  336 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  336 (363)
                       .+.-|.-++.+|.+.|+.++|.+++-+....     .    -...+|.+.|++.+|.++
T Consensus       743 -sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  743 -SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             -CCCCchhHHHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHH
Confidence             2456777889999999999999998776432     1    456778888888887665

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.23  E-value=0.013  Score=32.01  Aligned_cols=40  Identities=13%  Similarity=0.277  Sum_probs=30.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTL   65 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   65 (363)
                      .+|..+...|.+.|++++|.++|++.++.. +-|...|..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHh
Confidence            578889999999999999999999999873 3344444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.21  E-value=0.091  Score=36.11  Aligned_cols=88  Identities=15%  Similarity=0.100  Sum_probs=70.2

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---ccHHHHHHHHHhcCChhH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV---TTCDTLITGLRRTGNMNL   77 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~l~~~~~~~~~~~~   77 (363)
                      .|+.+.|++.|...+..  .|..+.+||.-..++.-.|+.++|++=+++..+..-..+.   ..|..-...|...|+.+.
T Consensus        56 ~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~  133 (175)
T KOG4555|consen   56 AGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDA  133 (175)
T ss_pred             ccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHH
Confidence            47899999999999885  7778999999999999999999999999998876212222   234444556778899999


Q ss_pred             HHHHHHHHHhccC
Q 044256           78 TLKLHQEMVNGMG   90 (363)
Q Consensus        78 a~~~~~~~~~~~~   90 (363)
                      |..-|+..-+.|.
T Consensus       134 AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  134 ARADFEAAAQLGS  146 (175)
T ss_pred             HHHhHHHHHHhCC
Confidence            9999998887763

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.20  E-value=0.24  Score=40.14  Aligned_cols=117  Identities=12%  Similarity=0.036  Sum_probs=56.3

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHH----HHHHHHHHhcCCh
Q 044256          138 CKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSY----SVLINGYCKNFNV  213 (363)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~  213 (363)
                      ...|+..+|-..++++++. .|.|...+...=.+|.-.|+.+.....++++... ..||...|    ....-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3455555555555555544 2445555555555566666666555555555433 11222222    2222233455666


Q ss_pred             hHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          214 EEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPT  269 (363)
Q Consensus       214 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  269 (363)
                      ++|.+.-++..+.+             +.|.-.-.+....+...|++.++.+.+.+
T Consensus       192 ~dAEk~A~ralqiN-------------~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  192 DDAEKQADRALQIN-------------RFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             hhHHHHHHhhccCC-------------CcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            66655554444332             22333334444444455566666555544

>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=96.16  E-value=0.35  Score=42.00  Aligned_cols=161  Identities=14%  Similarity=0.029  Sum_probs=100.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHH
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVE  145 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (363)
                      .....-.++++.+.++.+.-.-..       .....-.+.+++.+.+.|..+.|+++...-..+    -....+.|+++.
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~-------~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~r----FeLAl~lg~L~~  336 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLP-------NIPKDQGQSIARFLEKKGYPELALQFVTDPDHR----FELALQLGNLDI  336 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGG-------G--HHHHHHHHHHHHHTT-HHHHHHHSS-HHHH----HHHHHHCT-HHH
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcc-------cCChhHHHHHHHHHHHCCCHHHHHhhcCChHHH----hHHHHhcCCHHH
Confidence            344556788888777765221110       112455888999999999999999886553321    114566777777


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                      |.++.+.      .++...|..|.+...+.|+++-|++.|.+..+         |..|+-.|...|+.+.-.++.+....
T Consensus       337 A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  337 ALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             HHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            7776543      34667999999999999999999999987554         56666678888888777666555544


Q ss_pred             hhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          226 NGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTL  270 (363)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  270 (363)
                      .+                  -++....++...|+.++..+++.+.
T Consensus       402 ~~------------------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  402 RG------------------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             TT-------------------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             cc------------------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            33                  2455556666778888888877654

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.13  E-value=0.67  Score=38.91  Aligned_cols=170  Identities=12%  Similarity=-0.050  Sum_probs=102.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHh---cCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARKG---FMPDVFSYSVLINGYCK---NFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      ...++-.|....+++..+++.+.+....   +.-....--...-++.+   .|+.++|++++..+...            
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~------------  211 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES------------  211 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc------------
Confidence            3345557889999999999999988751   11122222233445666   89999998777764322            


Q ss_pred             CCCCChHHHHHHHHHHHh---------cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC-hH---HHHHHH---
Q 044256          239 NVVPETFTCNIFIDGLCK---------NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI-FE---IASELF---  302 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~---~a~~~~---  302 (363)
                      ...+++.+|..+...|-.         ....++|+..|++.-+..  |+...-..++..+...|. ++   +..++-   
T Consensus       212 ~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l  289 (374)
T PF13281_consen  212 DENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKL  289 (374)
T ss_pred             cCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHH
Confidence            235777788887776632         123778888888776543  444332223333333332 11   222222   


Q ss_pred             HH-hhhCCC---CccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          303 NK-LSCKNL---VADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       303 ~~-~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      .. +.+.|.   ..+--.+.+++.++.-.|++++|.+.+++|... .+|..
T Consensus       290 ~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l-~~~~W  339 (374)
T PF13281_consen  290 SSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL-KPPAW  339 (374)
T ss_pred             HHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-CCcch
Confidence            22 222332   234445567788889999999999999999975 24443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.06  E-value=0.0091  Score=30.45  Aligned_cols=32  Identities=22%  Similarity=0.370  Sum_probs=26.1

Q ss_pred             HHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256           11 FGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDAS   44 (363)
Q Consensus        11 ~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~   44 (363)
                      |++.++.  .|.++.+|+.+...|...|++++|+
T Consensus         2 y~kAie~--~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIEL--NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHH--CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            4556665  7878999999999999999998885

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

Probab=96.01  E-value=0.032  Score=43.79  Aligned_cols=73  Identities=15%  Similarity=0.103  Sum_probs=60.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC----------------CHHHHHHHHHHHHhcCCCCCcccHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG----------------NIRDASQLVKKMATFGCRPNVTTCDTL   65 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~~~~~~~~~~~~l   65 (363)
                      +.++--...+..|.+.|+.. |..+|+.|++.+-+-.                +-+-++.++++|...|+.||.++-..|
T Consensus        86 ~HveFIy~ALk~m~eyGVer-Dl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~l  164 (406)
T KOG3941|consen   86 THVEFIYTALKYMKEYGVER-DLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDIL  164 (406)
T ss_pred             chHHHHHHHHHHHHHhcchh-hHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHH
Confidence            44556666778899999999 9999999999875432                345688999999999999999999999


Q ss_pred             HHHHHhcCCh
Q 044256           66 ITGLRRTGNM   75 (363)
Q Consensus        66 ~~~~~~~~~~   75 (363)
                      +.++.+.+-.
T Consensus       165 vn~FGr~~~p  174 (406)
T KOG3941|consen  165 VNAFGRWNFP  174 (406)
T ss_pred             HHHhcccccc
Confidence            9999887753

>PRK11906 transcriptional regulator; Provisional

Probab=95.98  E-value=0.37  Score=41.21  Aligned_cols=119  Identities=8%  Similarity=-0.029  Sum_probs=84.3

Q ss_pred             hhhhHHHHHHHHHH-cCCCCCchhhHHHHHHHHHhc---------CCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhc
Q 044256            3 KVLGALMAFGSFIR-RCYRPLNDVTFNSLIKGFCME---------GNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRT   72 (363)
Q Consensus         3 ~~~~A~~~~~~~~~-~~~~p~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~   72 (363)
                      +.+.|..+|++... ....|.....|..+..++...         ....+|.++-++..+.+ +-|......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            34678888988882 223665567777666655332         23556777777777776 55677777777777788


Q ss_pred             CChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           73 GNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        73 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ++++.|...|++....+       +....+|........-.|+.++|.+.+++..+.
T Consensus       352 ~~~~~a~~~f~rA~~L~-------Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS-------TDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             cchhhHHHHHHHHhhcC-------CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            88999999999998854       333556666666677789999999988886654

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.93  E-value=0.04  Score=30.07  Aligned_cols=27  Identities=19%  Similarity=0.250  Sum_probs=12.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          282 FNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       282 ~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      +..+...|...|++++|.++|+++.+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344444444444444444444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.86  E-value=0.37  Score=37.99  Aligned_cols=98  Identities=17%  Similarity=0.090  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC--CCccHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN--LVADVVAYNIL  320 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l  320 (363)
                      ..|+.-+..+ +.|++..|...|...++..  -.-.+..+-.|..++...|+++.|..+|..+.+.-  -+.-+..+--+
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            3688777754 6688999999999998763  12234456778999999999999999999998641  12235777788


Q ss_pred             HHHHHccCChhHHHHHHHHHHHc
Q 044256          321 IHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+..+.|+.++|..+|+++.+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            88999999999999999999985

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.82  E-value=1.2  Score=39.27  Aligned_cols=118  Identities=9%  Similarity=0.051  Sum_probs=76.0

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHH-hcCChhHHHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLR-RTGNMNLTLKLHQ   83 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~   83 (363)
                      +.+..+++.++..  .|.--.-|......=.+.|..+.+..+|++.... ++.+...|......+. ..|+.+.....|+
T Consensus        62 ~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe  138 (577)
T KOG1258|consen   62 DALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFE  138 (577)
T ss_pred             HHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHH
Confidence            4556666666655  6644445666666667778888888888887753 4556666665554443 4456677777777


Q ss_pred             HHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           84 EMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .....-+.    --.+...|...|..-..++++.....++++.++.
T Consensus       139 ~A~~~vG~----dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  139 RAKSYVGL----DFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHHHhccc----chhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            77664321    1223556777777777777788887777777654

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

Probab=95.82  E-value=1  Score=38.36  Aligned_cols=210  Identities=15%  Similarity=0.099  Sum_probs=132.1

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC------CCcchhhhccCC
Q 044256           69 LRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG------INANTLLCKKTK  142 (363)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~~  142 (363)
                      +...++-+.|++..+....        ..|+..  -.+-..|.-..+.+.....|+...+.-      ...+......|+
T Consensus       312 ~~~isd~q~al~tv~rg~~--------~spsL~--~~lse~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N  381 (660)
T COG5107         312 LIGISDKQKALKTVERGIE--------MSPSLT--MFLSEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNN  381 (660)
T ss_pred             HhhccHHHHHHHHHHhccc--------CCCchh--eeHHHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCC
Confidence            3445566667766655443        234311  122334444555555555555543210      111111122344


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCcHhHHHHHHHHHHhcCChhHHHHHHH
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKG-FMPDVFSYSVLINGYCKNFNVEEAMNVSR  221 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (363)
                      ++...+++-+-+.    .-..+|...++.-.+..-++.|..+|-++.+.| +.+++..++++|..++ .|+..-|..+|+
T Consensus       382 ~e~~~Ell~kr~~----k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ife  456 (660)
T COG5107         382 FEYSKELLLKRIN----KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFE  456 (660)
T ss_pred             ccccHHHHHHHHh----hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHH
Confidence            4333333222111    123577888888888888999999999999988 6788889999998665 678888888877


Q ss_pred             HHHHhhHHHHHHHhHhcCCCCChHHH-HHHHHHHHhcCCHHHHHHHHHHHHhccCcch--HHHHHHHHHHHHhcCChHHH
Q 044256          222 EMILNGFKKIFNEMKLCNVVPETFTC-NIFIDGLCKNGHVLEVMELFPTLEISNCELF--VEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a  298 (363)
                      --+..-              ||...| +-.+..+...++-..|..+|+..+.. +..+  ..+|..+|.--..-|++..+
T Consensus       457 lGl~~f--------------~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v  521 (660)
T COG5107         457 LGLLKF--------------PDSTLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNV  521 (660)
T ss_pred             HHHHhC--------------CCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHH
Confidence            654432              554443 45677778889999999999965543 1222  45888899888889999888


Q ss_pred             HHHHHHhhhC
Q 044256          299 SELFNKLSCK  308 (363)
Q Consensus       299 ~~~~~~~~~~  308 (363)
                      ..+-+++...
T Consensus       522 ~sLe~rf~e~  531 (660)
T COG5107         522 YSLEERFREL  531 (660)
T ss_pred             HhHHHHHHHH
Confidence            8877777654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.78  E-value=0.5  Score=34.50  Aligned_cols=125  Identities=14%  Similarity=0.069  Sum_probs=82.5

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH-----HHHHHHhcCCHHHHHHHHHHHHHcCCCcc
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS-----LIDGLCKDRLVDQTKDLFMEMKDKGINAN  134 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  134 (363)
                      ..|...+. ..+.+..++|+.-|..+.+.+      .    -.|-.     ........|+...|...|+++-.....|.
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg------~----g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~  128 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTG------Y----GSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQ  128 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcC------C----CcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcc
Confidence            34444443 345677888888888888766      1    12222     23345678888888888888876655554


Q ss_pred             h-----------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 044256          135 T-----------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP  195 (363)
Q Consensus       135 ~-----------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  195 (363)
                      .           .+...|.++......+.+...+-+.....-..|.-+-.+.|++..|.++|..+......|
T Consensus       129 ~~rd~ARlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         129 IGRDLARLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             hhhHHHHHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            3           456677777777776666655544445556667777778888888888888877653333

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.76  E-value=0.25  Score=34.90  Aligned_cols=71  Identities=10%  Similarity=0.074  Sum_probs=49.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYR-PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~-p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   71 (363)
                      .|++++|.+.|+.+...-.. |-...+--.++.+|.+.+++++|...+++.++....-...-|...+.+++.
T Consensus        23 ~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   23 KGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             hCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            47899999999999886221 124556777888999999999999999999887422112345555555443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.75  E-value=0.52  Score=34.43  Aligned_cols=61  Identities=16%  Similarity=0.186  Sum_probs=25.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHh
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQEMVN   87 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~   87 (363)
                      .|..-++ +++.+..++|+.-|..+.+.|...-+. ..-.........|+...|...|+++-.
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~  122 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhc
Confidence            3443333 234444555555555555443221000 001111223344555555555555544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.64  E-value=0.19  Score=40.14  Aligned_cols=80  Identities=14%  Similarity=0.061  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHHHH
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE-----NGCALDVDTFN  353 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~  353 (363)
                      ..++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            4577888999999999999999999999875 66889999999999999999999999998875     48999988887


Q ss_pred             HHHHHH
Q 044256          354 TLMISF  359 (363)
Q Consensus       354 ~ll~~~  359 (363)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            776653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.60  E-value=0.47  Score=33.58  Aligned_cols=80  Identities=15%  Similarity=0.125  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      ..|.. .....+.|++++|.+.|+.+...-  -+-....-..|+.+|.+.+++++|...+++.++....-...-|-..+.
T Consensus        12 ~ly~~-a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~   90 (142)
T PF13512_consen   12 ELYQE-AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMR   90 (142)
T ss_pred             HHHHH-HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            34443 444567899999999999998762  122345667889999999999999999999998753222233444444


Q ss_pred             HHH
Q 044256          323 ALG  325 (363)
Q Consensus       323 ~~~  325 (363)
                      +++
T Consensus        91 gL~   93 (142)
T PF13512_consen   91 GLS   93 (142)
T ss_pred             HHH
Confidence            433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.57  E-value=0.6  Score=36.86  Aligned_cols=99  Identities=11%  Similarity=0.007  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN---VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .|+.-+.. .+.|++..|...|...++.. +-+   ...+--|..++...|++++|..+|..+.+..+.    .+.-+..
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~----s~KApda  217 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPK----SPKAPDA  217 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCC----CCCChHH
Confidence            57777764 57788999999999998863 212   234556889999999999999999999886532    2233567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      +--|..+..+.|+.+.|-..|+++.+.-
T Consensus       218 llKlg~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         218 LLKLGVSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHC
Confidence            7788888999999999999999998863

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.57  E-value=1.1  Score=36.77  Aligned_cols=137  Identities=13%  Similarity=0.171  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC---CCChHHHHHHHHHH
Q 044256          178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV---VPETFTCNIFIDGL  254 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~ll~~~  254 (363)
                      ++....+++.|.+.|+.-+..+|-+....... .+.++......++     ..+++.|++...   .++...+..++.. 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~-~~~~~~~~~~~ra-----~~iy~~mKk~H~fLTs~~D~~~a~lLA~-  150 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEE-EEKEDYDEIIQRA-----KEIYKEMKKKHPFLTSPEDYPFAALLAM-  150 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHh-cccccHHHHHHHH-----HHHHHHHHHhCccccCccchhHHHHHhc-
Confidence            34566788899999998888777664443333 2333333333333     366777766543   2344556666544 


Q ss_pred             HhcCC----HHHHHHHHHHHHhccCcchH--HHHHHHHHHHHhcCC--hHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          255 CKNGH----VLEVMELFPTLEISNCELFV--EIFNSLIRGCCKFGI--FEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       255 ~~~~~----~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                       ..++    .+.++.+|+.+.+.|+..+-  ...+.++..+.....  ..++.++++.+.+.|+++....|..+.-
T Consensus       151 -~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  151 -TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             -ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence             3333    45778888888887765432  333344433332222  4578889999999998888777766544

>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=95.34  E-value=0.72  Score=33.38  Aligned_cols=81  Identities=12%  Similarity=-0.036  Sum_probs=37.3

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH   82 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   82 (363)
                      +.+++..+++.+.-.  .|..+..-..-...+.+.|++.+|+++|+.+...  .|....-..|+..|....+-..-...-
T Consensus        25 ~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~D~~Wr~~A  100 (160)
T PF09613_consen   25 DPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALGDPSWRRYA  100 (160)
T ss_pred             ChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcCChHHHHHH
Confidence            455555666655543  4433333223333345666666666666666544  233333334444444333333333333


Q ss_pred             HHHHh
Q 044256           83 QEMVN   87 (363)
Q Consensus        83 ~~~~~   87 (363)
                      +++.+
T Consensus       101 ~evle  105 (160)
T PF09613_consen  101 DEVLE  105 (160)
T ss_pred             HHHHh
Confidence            33444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.29  E-value=0.7  Score=32.98  Aligned_cols=128  Identities=15%  Similarity=0.075  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      ....++..+...+.......+++.+...+. .+...++.++..|++.++ .+....++.                  ..+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~------------------~~~   68 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN------------------KSN   68 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh------------------ccc
Confidence            344567777777888888888888877763 566778888888876533 222222220                  123


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc-CChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF-GIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      ......++..|.+.+-++++.-++.++...     ...    +..+... ++++.|.+++.+-      .++..|..++.
T Consensus        69 ~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~-----~~A----l~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~  133 (140)
T smart00299       69 HYDIEKVGKLCEKAKLYEEAVELYKKDGNF-----KDA----IVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLK  133 (140)
T ss_pred             cCCHHHHHHHHHHcCcHHHHHHHHHhhcCH-----HHH----HHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHH
Confidence            334455677777777777877777765321     122    2223333 6777777777652      25667777776


Q ss_pred             HHHc
Q 044256          323 ALGK  326 (363)
Q Consensus       323 ~~~~  326 (363)
                      .+..
T Consensus       134 ~~l~  137 (140)
T smart00299      134 ALLD  137 (140)
T ss_pred             HHHc
Confidence            6553

>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=95.27  E-value=0.76  Score=33.26  Aligned_cols=103  Identities=14%  Similarity=-0.035  Sum_probs=60.8

Q ss_pred             HHHHHHHH---HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          246 TCNIFIDG---LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       246 ~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      +.+.|+..   -...++.+.+..++..+.-.. |-....-..-...+...|++.+|.++|+++...  .|....-..|+.
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA   85 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLA   85 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHH
Confidence            44444443   346778999999998887653 222333333345567889999999999998776  344444455555


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCCCCHHH
Q 044256          323 ALGKEGQIKKENYLLLSMEENGCALDVDT  351 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  351 (363)
                      .|....+-..=...-+++.+.+-.|+...
T Consensus        86 ~CL~~~~D~~Wr~~A~evle~~~d~~a~~  114 (160)
T PF09613_consen   86 LCLYALGDPSWRRYADEVLESGADPDARA  114 (160)
T ss_pred             HHHHHcCChHHHHHHHHHHhcCCChHHHH
Confidence            55443332333334445666544444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.22  E-value=0.74  Score=32.85  Aligned_cols=128  Identities=15%  Similarity=0.091  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF  278 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  278 (363)
                      ....++..+.+.+.......+++.+...+             ..+...++.++..|++.+ ..+....++.      ..+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-------------~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~   68 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN-------------SENPALQTKLIELYAKYD-PQKEIERLDN------KSN   68 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC-------------ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccc
Confidence            34567777777788888887777665432             256678899999998764 4555555552      122


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc-CChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE-GQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      ......++..|.+.+-++++..++.++..     ...    .+..+... ++++.|.+++.+-      -+...|..++.
T Consensus        69 ~yd~~~~~~~c~~~~l~~~~~~l~~k~~~-----~~~----Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~  133 (140)
T smart00299       69 HYDIEKVGKLCEKAKLYEEAVELYKKDGN-----FKD----AIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLK  133 (140)
T ss_pred             cCCHHHHHHHHHHcCcHHHHHHHHHhhcC-----HHH----HHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHH
Confidence            33344578888888889899988887643     222    33333333 8888888887752      36778888888


Q ss_pred             HHhh
Q 044256          358 SFLQ  361 (363)
Q Consensus       358 ~~~~  361 (363)
                      .+..
T Consensus       134 ~~l~  137 (140)
T smart00299      134 ALLD  137 (140)
T ss_pred             HHHc
Confidence            7764

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.20  E-value=2.4  Score=39.20  Aligned_cols=213  Identities=14%  Similarity=0.153  Sum_probs=126.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHH----HhcC------------CCCCcccHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKM----ATFG------------CRPNVTTCDTLITGLRRTGNMNLTLKLHQEMV   86 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   86 (363)
                      +....+.++.+|...+++-.=.-+++..    ...+            ..........-+....+...++-|..+-..- 
T Consensus       282 s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~-  360 (933)
T KOG2114|consen  282 SNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQ-  360 (933)
T ss_pred             CccchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhc-
Confidence            3455677778887777654433333332    2222            0112234556677777888888887765432 


Q ss_pred             hccCCCCCccCCchhh----HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---hhhccCChHHHHHHHHHHHHcCCC
Q 044256           87 NGMGDFGGIYKPNVFC----YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---LLCKKTKLVEANRLLELMMQRGLN  159 (363)
Q Consensus        87 ~~~~~~~~~~~~~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~~~  159 (363)
                                ..+...    .......+.+.|++++|...|-+-+.. +.|..   -+.......+-..+++.+.+.|+.
T Consensus       361 ----------~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s~Vi~kfLdaq~IknLt~YLe~L~~~gla  429 (933)
T KOG2114|consen  361 ----------HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPSEVIKKFLDAQRIKNLTSYLEALHKKGLA  429 (933)
T ss_pred             ----------CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChHHHHHHhcCHHHHHHHHHHHHHHHHcccc
Confidence                      223333    333445566789999999888776543 33333   344555666667778888888854


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                       +...-+.|+.+|.+.++.++-.++.+... .|.-  ..-....+..+.+.+-.++|..+-.+..               
T Consensus       430 -~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~---------------  490 (933)
T KOG2114|consen  430 -NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFK---------------  490 (933)
T ss_pred             -cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhc---------------
Confidence             45566788999999999988777766544 2211  1113345555666666666654433321               


Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          240 VVPETFTCNIFIDGLCKNGHVLEVMELFPTLE  271 (363)
Q Consensus       240 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  271 (363)
                        .+......++   -..+++++|++.+..+.
T Consensus       491 --~he~vl~ill---e~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  491 --KHEWVLDILL---EDLHNYEEALRYISSLP  517 (933)
T ss_pred             --cCHHHHHHHH---HHhcCHHHHHHHHhcCC
Confidence              1222333333   35688899988887764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.14  E-value=0.26  Score=31.89  Aligned_cols=45  Identities=13%  Similarity=0.212  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      ++.+-++.+....+.|++.+..+.+++|.+.+++..|.++|+-+.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333444444444444555555555555555555555555555444

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.10  E-value=1.3  Score=34.85  Aligned_cols=181  Identities=14%  Similarity=0.108  Sum_probs=101.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN---VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      +..|..-+..-.+.|++++|.+.|+.+.... +-+   ..+--.++.++-+.+++++|+..+++....-+     -.|| 
T Consensus        34 ~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~-p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP-----~~~n-  106 (254)
T COG4105          34 ASELYNEGLTELQKGNYEEAIKYFEALDSRH-PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYP-----THPN-  106 (254)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-----CCCC-
Confidence            3344444555678999999999999999762 222   33455677788899999999999999988652     2233 


Q ss_pred             hhHHHHHHHHHh-------cCCHHHHH---HHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 044256          101 FCYGSLIDGLCK-------DRLVDQTK---DLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLN  170 (363)
Q Consensus       101 ~~~~~ll~~~~~-------~~~~~~a~---~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  170 (363)
                      .-|..-|.+.+.       .++...+.   .-|+++++.-  |++     .-...|...+..+...=    ...=..+.+
T Consensus       107 ~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ry--PnS-----~Ya~dA~~~i~~~~d~L----A~~Em~Iar  175 (254)
T COG4105         107 ADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRY--PNS-----RYAPDAKARIVKLNDAL----AGHEMAIAR  175 (254)
T ss_pred             hhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHC--CCC-----cchhhHHHHHHHHHHHH----HHHHHHHHH
Confidence            234444444442       23333333   3444444432  222     00111111111111100    000123456


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcH---hHHHHHHHHHHhcCChhHHHHHHHHH
Q 044256          171 GYCLVGKVNVAIALFDSMARKGFMPDV---FSYSVLINGYCKNFNVEEAMNVSREM  223 (363)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (363)
                      .|.+.|.+..|..-++.|.+. .+-+.   ..+-.+..+|...|-.++|...-.-+
T Consensus       176 yY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         176 YYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            677788888888888887776 22222   23445666777777777776654444

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.05  E-value=0.067  Score=27.61  Aligned_cols=26  Identities=15%  Similarity=0.253  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMA   51 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~   51 (363)
                      +|+.|...|.+.|++++|+++|++.+
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            35566666666777777777666643

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.02  E-value=2.1  Score=37.09  Aligned_cols=149  Identities=13%  Similarity=0.079  Sum_probs=86.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH-------------hc
Q 044256          172 YCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK-------------LC  238 (363)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------------~~  238 (363)
                      .-+..+...-++.-++..+.  .||-.+.-.++ +--......++.+++++..+.+- ..+..-.             ..
T Consensus       178 AWRERnp~aRIkaA~eALei--~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE-~~lg~s~~~~~~g~~~e~~~~R  253 (539)
T PF04184_consen  178 AWRERNPQARIKAAKEALEI--NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGE-ASLGKSQFLQHHGHFWEAWHRR  253 (539)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHH-Hhhchhhhhhcccchhhhhhcc
Confidence            33445555555555555443  23322221111 22234556778888877776652 2222211             11


Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc-cHHH
Q 044256          239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN-CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA-DVVA  316 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~  316 (363)
                      ...|-..+-..+..++-+.|+.++|++.++++.+.. ...+..+...|+.++...+.+.++..++.+..+...+. -...
T Consensus       254 dt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~  333 (539)
T PF04184_consen  254 DTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATIC  333 (539)
T ss_pred             ccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHH
Confidence            111112223345556668899999999999998653 12245577889999999999999999999986543322 2345


Q ss_pred             HHHHHHHH
Q 044256          317 YNILIHAL  324 (363)
Q Consensus       317 ~~~li~~~  324 (363)
                      |+..+-.+
T Consensus       334 YTaALLka  341 (539)
T PF04184_consen  334 YTAALLKA  341 (539)
T ss_pred             HHHHHHHH
Confidence            66555433

The molecular function of this protein is uncertain.

>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=94.96  E-value=0.0056  Score=44.04  Aligned_cols=130  Identities=12%  Similarity=0.038  Sum_probs=80.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHH
Q 044256           28 NSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLI  107 (363)
Q Consensus        28 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  107 (363)
                      ..++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++   ..          +..-...++
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~---~~----------~~yd~~~~~   77 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK---TS----------NNYDLDKAL   77 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT---SS----------SSS-CTHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc---cc----------cccCHHHHH
Confidence            34677777888899999999999877655667778899999999887788777766   11          113345677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256          108 DGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus       108 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      ..|.+.|.++.+.-++.++-...-.... +...++++.|.++...      .++...|..++..|...+.
T Consensus        78 ~~c~~~~l~~~a~~Ly~~~~~~~~al~i-~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   78 RLCEKHGLYEEAVYLYSKLGNHDEALEI-LHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHTTTSHHHHHHHHHCCTTHTTCSST-SSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTC
T ss_pred             HHHHhcchHHHHHHHHHHcccHHHHHHH-HHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCc
Confidence            7788888888888877765432211111 3333444444422221      2345566666666655443

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.93  E-value=0.8  Score=31.71  Aligned_cols=109  Identities=15%  Similarity=0.018  Sum_probs=66.2

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHH---HHHHHhcCChhHH
Q 044256          140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVL---INGYCKNFNVEEA  216 (363)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a  216 (363)
                      .|+.+.|++.|.+.+.. .+.....||.-..++.-.|+.++|..=+++..+..-........+.   ...|...|+.+.|
T Consensus        56 ~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~A  134 (175)
T KOG4555|consen   56 AGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDAA  134 (175)
T ss_pred             ccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHHH
Confidence            33444444444433332 2446778999999999999999999988887765222233333322   2346678999999


Q ss_pred             HHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHH
Q 044256          217 MNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFI  251 (363)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  251 (363)
                      ..-|+..-+.|  .-|-.+.--.+.|-...+|.++
T Consensus       135 R~DFe~AA~LG--S~FAr~QLV~lNPYAAlCN~ML  167 (175)
T KOG4555|consen  135 RADFEAAAQLG--SKFAREQLVELNPYAALCNQML  167 (175)
T ss_pred             HHhHHHHHHhC--CHHHHHHHHhcChHHHHHHHHH
Confidence            88888877766  3343433333445555555544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.91  E-value=0.22  Score=32.51  Aligned_cols=46  Identities=15%  Similarity=0.186  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      +..+-+..+....+.|++.+..+.+.+|.+.+++..|.++|+-+..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444444555555555555555555555555555555543

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 ....

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.89  E-value=0.068  Score=27.59  Aligned_cols=27  Identities=19%  Similarity=0.058  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +|..|...|.+.|++++|+++|++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            466778888888888888888888553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.63  E-value=0.092  Score=26.54  Aligned_cols=28  Identities=21%  Similarity=0.032  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          315 VAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       315 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+|..+..++...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3455666666666666666666666665

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 ....

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.58  E-value=3.5  Score=37.47  Aligned_cols=32  Identities=9%  Similarity=0.079  Sum_probs=26.1

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMAT   52 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   52 (363)
                      .| .+..|..+.......-.++.|...|-+...
T Consensus       689 nP-HprLWrllAe~Al~Kl~l~tAE~AFVrc~d  720 (1189)
T KOG2041|consen  689 NP-HPRLWRLLAEYALFKLALDTAEHAFVRCGD  720 (1189)
T ss_pred             CC-chHHHHHHHHHHHHHHhhhhHhhhhhhhcc
Confidence            67 889999999988888888888888876643

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.34  E-value=1.3  Score=31.58  Aligned_cols=92  Identities=13%  Similarity=0.048  Sum_probs=47.5

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcccH-HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCc--------cCCchhhHHH
Q 044256           35 CMEGNIRDASQLVKKMATFGCRPNVTTC-DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGI--------YKPNVFCYGS  105 (363)
Q Consensus        35 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~~~~~~~  105 (363)
                      ...++++++..+++.|.-.  .|+..-. ..-...+...|+|.+|.++|+++.+.+..++..        .-..-..|..
T Consensus        21 L~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp~Wr~   98 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDAEWHV   98 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCChHHHH
Confidence            3466667777777666544  4443222 112233456677777777777766654210000        0001223444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      ........+...++..+.+.+..
T Consensus        99 ~A~~~le~~~~~~a~~Lv~al~g  121 (153)
T TIGR02561        99 HADEVLARDADADAVALVRALLG  121 (153)
T ss_pred             HHHHHHHhCCCHhHHHHHHHHhc
Confidence            45555556666777777777763

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=94.32  E-value=2.4  Score=34.52  Aligned_cols=217  Identities=13%  Similarity=0.046  Sum_probs=116.4

Q ss_pred             HhcCCHHHHHHHHHHHHHcC--CCcch-------------hhhccC-ChHHHHHHHHHHHHc--------CCCCc-----
Q 044256          111 CKDRLVDQTKDLFMEMKDKG--INANT-------------LLCKKT-KLVEANRLLELMMQR--------GLNPV-----  161 (363)
Q Consensus       111 ~~~~~~~~a~~~~~~~~~~~--~~~~~-------------~~~~~~-~~~~a~~~~~~~~~~--------~~~~~-----  161 (363)
                      .+.|+.+.|..++.+.....  ..|+.             .....+ +++.|...+++..+.        ...|+     
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            45677777777777766533  22222             234455 777777666655432        12233     


Q ss_pred             hhhHHHHHHHHHhcCCHH---HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          162 IFTYTPLLNGYCLVGKVN---VAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      ..++..++.+|...+..+   +|..+++.+... .+-.+..+..-+..+.+.++.+++.+++.+|+..-           
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-----------  151 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-----------  151 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-----------
Confidence            245666778888777655   455566566443 22234555566677777888899988887776542           


Q ss_pred             CCCCChHHHHHHHHHHHh--cCCHHHHHHHHHHHHhccCcchHH-HHH-HHHH---HHHhcCC------hHHHHHHHHHh
Q 044256          239 NVVPETFTCNIFIDGLCK--NGHVLEVMELFPTLEISNCELFVE-IFN-SLIR---GCCKFGI------FEIASELFNKL  305 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~-~~~-~li~---~~~~~~~------~~~a~~~~~~~  305 (363)
                        ......+..++..+..  ......|...+..+....+.|... ... .++.   ...+.++      .+...++++.+
T Consensus       152 --~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v  229 (278)
T PF08631_consen  152 --DHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIV  229 (278)
T ss_pred             --ccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHH
Confidence              1133445555554422  233456666666666554454443 111 1111   1112212      44444555533


Q ss_pred             hh-CCCCccHHHHH---HH----HHHHHccCChhHHHHHHHHHH
Q 044256          306 SC-KNLVADVVAYN---IL----IHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       306 ~~-~~~~~~~~~~~---~l----i~~~~~~g~~~~a~~~~~~m~  341 (363)
                      .. .+.+.+..+-.   ++    ...+.+.+++++|.++|+-..
T Consensus       230 ~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  230 EHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            32 12233333222   22    234567899999999998654

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=94.31  E-value=1.5  Score=37.78  Aligned_cols=113  Identities=5%  Similarity=-0.035  Sum_probs=81.5

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      ...+|.++-+...+.  .|.|+.+...+..++.-.++++.|..+|++....  .|| ..+|........-.|+.++|.+.
T Consensus       319 ~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~  394 (458)
T PRK11906        319 AAQKALELLDYVSDI--TTVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARIC  394 (458)
T ss_pred             HHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            456778888888886  7779999999999889999999999999999887  455 44666666667778999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFME  125 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  125 (363)
                      +++..+..+     .+.-..+....+..|+..+ ++.|.++|-+
T Consensus       395 i~~alrLsP-----~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        395 IDKSLQLEP-----RRRKAVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHhccCc-----hhhHHHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence            999877431     1222333444444565544 5666666543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.30  E-value=3.3  Score=36.09  Aligned_cols=181  Identities=13%  Similarity=0.089  Sum_probs=121.4

Q ss_pred             HHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCC
Q 044256           14 FIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFG   93 (363)
Q Consensus        14 ~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   93 (363)
                      |....-.|.|....-+++..+..+..+.-...+..+|+..|  .+...|..++.+|... ..+.-..+++++.+..    
T Consensus        56 ~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~d----  128 (711)
T COG1747          56 IISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYD----  128 (711)
T ss_pred             HHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc----
Confidence            33334467788888899999999999999999999999875  4667788899999888 5677888888888843    


Q ss_pred             CccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------hh--hccCChHHHHHHHHHHHH-cCCCCc
Q 044256           94 GIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------LL--CKKTKLVEANRLLELMMQ-RGLNPV  161 (363)
Q Consensus        94 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~--~~~~~~~~a~~~~~~~~~-~~~~~~  161 (363)
                          -|......-+.-+...++...+...|.+...+-++...         -+  .-..+.+..+.+...+.. .|...-
T Consensus       129 ----fnDvv~~ReLa~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~~~~  204 (711)
T COG1747         129 ----FNDVVIGRELADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGEGRG  204 (711)
T ss_pred             ----chhHHHHHHHHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhccchH
Confidence                34444444444444558888888888888765443111         11  124555666665555543 233333


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLING  206 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  206 (363)
                      ...+.-+-..|....++++|++++..+.++.- .|...-..++.-
T Consensus       205 ~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~-k~~~ar~~~i~~  248 (711)
T COG1747         205 SVLMQDVYKKYSENENWTEAIRILKHILEHDE-KDVWARKEIIEN  248 (711)
T ss_pred             HHHHHHHHHHhccccCHHHHHHHHHHHhhhcc-hhhhHHHHHHHH
Confidence            45556666778888899999999997777632 244444444443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.29  E-value=0.065  Score=27.26  Aligned_cols=23  Identities=26%  Similarity=0.185  Sum_probs=10.2

Q ss_pred             cchHHHHHHHHHHHHhcCChHHH
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      |-+...|..+...|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            33444444444444444444444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.28  E-value=0.17  Score=25.53  Aligned_cols=29  Identities=10%  Similarity=0.242  Sum_probs=22.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      .+|..+..++...|++++|+..|++.++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            56777888888888888888888887765

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.19  E-value=2.8  Score=34.79  Aligned_cols=127  Identities=10%  Similarity=-0.010  Sum_probs=78.4

Q ss_pred             hhccCChHHHHHHHHHHHHcC-----CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCcHhHHHH-----
Q 044256          137 LCKKTKLVEANRLLELMMQRG-----LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMPDVFSYSV-----  202 (363)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~-----  202 (363)
                      ....+.++++++.|+...+.-     ......+|..|.+.|.+..|+++|.-+.....+.    ++..-...|..     
T Consensus       132 hlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyh  211 (518)
T KOG1941|consen  132 HLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYH  211 (518)
T ss_pred             hhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHH
Confidence            344555666666666554421     1223567888999999999999988776654332    32221222332     


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          203 LINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVMELFPTLE  271 (363)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  271 (363)
                      +.-++...|+..+|.+.-++..+..        ...|-.+ .......+.+.|...|+.+.|+.-|+...
T Consensus       212 maValR~~G~LgdA~e~C~Ea~kla--------l~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  212 MAVALRLLGRLGDAMECCEEAMKLA--------LQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHH--------HHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            3335667888888887777665443        2223222 23345667788999999999888877653

>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=94.15  E-value=2.6  Score=34.31  Aligned_cols=216  Identities=10%  Similarity=-0.002  Sum_probs=120.9

Q ss_pred             ChhhhhHHHHHHHHHHcC--CCCCc----hhhHHHHHHHHHhcC-CHHHHHHHHHHHHhc--------CCCCCc-----c
Q 044256            1 TSKVLGALMAFGSFIRRC--YRPLN----DVTFNSLIKGFCMEG-NIRDASQLVKKMATF--------GCRPNV-----T   60 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~--~~p~~----~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~--------~~~~~~-----~   60 (363)
                      .||++.|.-++.++....  ..|..    ...+..+.......+ +++.|..++++..+.        ...|+.     .
T Consensus         6 ~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~   85 (278)
T PF08631_consen    6 QGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLS   85 (278)
T ss_pred             hCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHH
Confidence            478999999999887643  22311    112222333345566 888888877765433        122332     2


Q ss_pred             cHHHHHHHHHhcCChh---HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--
Q 044256           61 TCDTLITGLRRTGNMN---LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--  135 (363)
Q Consensus        61 ~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  135 (363)
                      ++..++.++...+..+   +|..+++.+....       +..+.++-.-+..+.+.++.+.+.+.+.+|...-..++.  
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-------~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~  158 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEY-------GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNF  158 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-------CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchH
Confidence            4566778887777654   5566666665432       333566667778888899999999999999987543433  


Q ss_pred             -------hhhccCChHHHHHHHHHHHHcCCCCchh-hH-HHHHH---HHHhcCC------HHHHHHHHHHHHHc-CCCCc
Q 044256          136 -------LLCKKTKLVEANRLLELMMQRGLNPVIF-TY-TPLLN---GYCLVGK------VNVAIALFDSMARK-GFMPD  196 (363)
Q Consensus       136 -------~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~-~~li~---~~~~~~~------~~~a~~~~~~~~~~-~~~~~  196 (363)
                             ..........+...++.++...+.|... .. ..++.   ...+.++      .+....+++...+. +.+.+
T Consensus       159 ~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  159 DSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence                   1123344456666666666554444443 11 11111   1112222      44444555533332 22333


Q ss_pred             HhHHHHH---H----HHHHhcCChhHHHHHHHHH
Q 044256          197 VFSYSVL---I----NGYCKNFNVEEAMNVSREM  223 (363)
Q Consensus       197 ~~~~~~l---~----~~~~~~~~~~~a~~~~~~~  223 (363)
                      ..+-.++   +    ..+.+.++++.|.+.++-.
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            3333322   2    2356788999998777643

It is also involved in sporulation [].

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.12  E-value=0.19  Score=25.26  Aligned_cols=29  Identities=17%  Similarity=0.242  Sum_probs=22.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      ..|..+..++...|++++|++.|++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46777788888888888888888887765

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 ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.10  E-value=2.5  Score=33.97  Aligned_cols=56  Identities=11%  Similarity=0.049  Sum_probs=45.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      .......|++.+|..+|....+..       +.+...--.++.+|...|+.+.|..++..+..
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~-------~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~  196 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA-------PENSEAKLLLAECLLAAGDVEAAQAILAALPL  196 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC-------cccchHHHHHHHHHHHcCChHHHHHHHHhCcc
Confidence            345567889999999999988865       55567778888999999999999999988754

>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=94.06  E-value=1.1  Score=33.57  Aligned_cols=98  Identities=14%  Similarity=0.095  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch--HHHHHHHHHHHHhcCChHHHHHHHHHhhhC---CCCccHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF--VEIFNSLIRGCCKFGIFEIASELFNKLSCK---NLVADVVAYNI  319 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~  319 (363)
                      ..+..+...|++.|+.+.|++.|.++.+....+.  ...+..+|......+++..+...+.++...   +-.++...--.
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            4677889999999999999999999987754443  446678888999999999999998887653   21122211111


Q ss_pred             HHH--HHHccCChhHHHHHHHHHHH
Q 044256          320 LIH--ALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       320 li~--~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ...  .+...+++.+|-+.|-+...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            111  33457899999888877653

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.01  E-value=2.3  Score=33.18  Aligned_cols=216  Identities=10%  Similarity=-0.032  Sum_probs=107.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      ...|..-..+|....++++|...+.+..+- .+.|...|+. .      ..++.|.-+.+++..        ++--+..|
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-A------KayEqaamLake~~k--------lsEvvdl~   94 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-A------KAYEQAAMLAKELSK--------LSEVVDLY   94 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-H------HHHHHHHHHHHHHHH--------hHHHHHHH
Confidence            344666666677777777777766665532 1333332321 2      223444455555544        22234455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      +.....|..+|.++.|-..+++.-+.        ....++++|++++.+.               +......++...|..
T Consensus        95 eKAs~lY~E~GspdtAAmaleKAak~--------lenv~Pd~AlqlYqra---------------lavve~~dr~~ma~e  151 (308)
T KOG1585|consen   95 EKASELYVECGSPDTAAMALEKAAKA--------LENVKPDDALQLYQRA---------------LAVVEEDDRDQMAFE  151 (308)
T ss_pred             HHHHHHHHHhCCcchHHHHHHHHHHH--------hhcCCHHHHHHHHHHH---------------HHHHhccchHHHHHH
Confidence            55666677777766666666554331        1122222333332221               111112222222222


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh-HHHHHHHHHHHhcCCHHH
Q 044256          184 LFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET-FTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~  262 (363)
                      +               +...-..+.+..++++|-..+.+-.     .+......   -++. ..|...|-.+....++..
T Consensus       152 l---------------~gk~sr~lVrl~kf~Eaa~a~lKe~-----~~~~~~~~---y~~~~k~~va~ilv~L~~~Dyv~  208 (308)
T KOG1585|consen  152 L---------------YGKCSRVLVRLEKFTEAATAFLKEG-----VAADKCDA---YNSQCKAYVAAILVYLYAHDYVQ  208 (308)
T ss_pred             H---------------HHHhhhHhhhhHHhhHHHHHHHHhh-----hHHHHHhh---cccHHHHHHHHHHHHhhHHHHHH
Confidence            2               3333345566666666654443321     11111111   1222 234555556666778999


Q ss_pred             HHHHHHHHHhcc---CcchHHHHHHHHHHHHhcCChHHHHHHH
Q 044256          263 VMELFPTLEISN---CELFVEIFNSLIRGCCKFGIFEIASELF  302 (363)
Q Consensus       263 a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~  302 (363)
                      |...++.-.+.+   -+-+..+...|+.+|- .|+.+++..++
T Consensus       209 aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  209 AEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            999998854332   2345667778888765 57777766654

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.88  E-value=5.1  Score=36.70  Aligned_cols=87  Identities=9%  Similarity=0.059  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+.+--+.-+...|+..+|.++-.+.+    -||...|-.=+.+++..+++++-+++-+...      .+.-|.-.+.+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            345555666778899999999888766    6788899888999999999998877766554      245567788899


Q ss_pred             HccCChhHHHHHHHHHH
Q 044256          325 GKEGQIKKENYLLLSME  341 (363)
Q Consensus       325 ~~~g~~~~a~~~~~~m~  341 (363)
                      .+.|+.++|.+++-+..
T Consensus       755 ~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HhcccHHHHhhhhhccC
Confidence            99999999999887664

>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=93.73  E-value=0.8  Score=34.23  Aligned_cols=64  Identities=8%  Similarity=-0.047  Sum_probs=45.1

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           61 TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      .+..+...|.+.|+.+.|.+.|.++.+....    ...-...+-.+|+.....+++..+...+.+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~----~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTS----PGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCC----HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5667778888888888888888887765410    122245566777778888888888877777654

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.69  E-value=7.3  Score=37.84  Aligned_cols=16  Identities=13%  Similarity=0.144  Sum_probs=7.8

Q ss_pred             hcCCHHHHHHHHHHHH
Q 044256          112 KDRLVDQTKDLFMEMK  127 (363)
Q Consensus       112 ~~~~~~~a~~~~~~~~  127 (363)
                      .+.|+.+-+.+++++.
T Consensus       863 SqkDPkEyLP~L~el~  878 (1265)
T KOG1920|consen  863 SQKDPKEYLPFLNELK  878 (1265)
T ss_pred             hccChHHHHHHHHHHh
Confidence            3444555555555544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.68  E-value=0.18  Score=25.28  Aligned_cols=27  Identities=19%  Similarity=0.065  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .|..+..++...|++++|++.|++.++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344555555666666666666666555

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 ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.66  E-value=4.5  Score=35.27  Aligned_cols=146  Identities=15%  Similarity=0.161  Sum_probs=83.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCCh
Q 044256           65 LITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN-VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKL  143 (363)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  143 (363)
                      ++.-.-+..+.+.-.+.-.+..+        +.|| ...|..|  +--......++.+++++..+.+-..   +.+....
T Consensus       174 IMq~AWRERnp~aRIkaA~eALe--------i~pdCAdAYILL--AEEeA~Ti~Eae~l~rqAvkAgE~~---lg~s~~~  240 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALE--------INPDCADAYILL--AEEEASTIVEAEELLRQAVKAGEAS---LGKSQFL  240 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH--------hhhhhhHHHhhc--ccccccCHHHHHHHHHHHHHHHHHh---hchhhhh
Confidence            34444455555555555556655        3343 2333322  2223556788999998877653211   0010011


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          144 VEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM-PDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       144 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      +..-...+....+...|-..+-..+..++.+.|+.++|++.+++|.+.... ........|+.++...+.+.++..++.+
T Consensus       241 ~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  241 QHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             hcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            111112222222333333444455677778899999999999999865322 2334677899999999999999887766


Q ss_pred             H
Q 044256          223 M  223 (363)
Q Consensus       223 ~  223 (363)
                      -
T Consensus       321 Y  321 (539)
T PF04184_consen  321 Y  321 (539)
T ss_pred             h
Confidence            4

The molecular function of this protein is uncertain.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.46  E-value=2  Score=34.89  Aligned_cols=103  Identities=12%  Similarity=0.023  Sum_probs=70.3

Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc---CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH
Q 044256          239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN---CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVV  315 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  315 (363)
                      |.+....+...++..-....+++.++..+-++....   ..|+...+ ..++.+ -.-++++++.++..=...|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            444555566666666566677888888777765431   12222221 222322 2346778888888888889999999


Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +++.+++.+.+.+++.+|.++...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999988888877655

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.37  E-value=0.67  Score=30.03  Aligned_cols=63  Identities=8%  Similarity=0.208  Sum_probs=47.1

Q ss_pred             CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           39 NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+.++..-       ..+...|..++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-------~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-------GAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-------cCchhhHHHHHH
Confidence            444566677777777888999999999999999999999999999887542       334456665553

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.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.34  E-value=2.4  Score=31.17  Aligned_cols=136  Identities=12%  Similarity=0.047  Sum_probs=85.2

Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHH
Q 044256          182 IALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVL  261 (363)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  261 (363)
                      .+.++.+.+.+++|+...+..++..+.+.|++.....+                ...++-+|.......+-.+..  ...
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----------------lq~~Vi~DSk~lA~~LLs~~~--~~~   75 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----------------LQYHVIPDSKPLACQLLSLGN--QYP   75 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----------------HhhcccCCcHHHHHHHHHhHc--cCh
Confidence            34566667788999999999999999999987665433                444566776655544433322  223


Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      .+.++=-.|.+.=    ...+..++..+...|++-+|.++.+......    ......++.+..+.+|...-..+++-..
T Consensus        76 ~~~Ql~lDMLkRL----~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   76 PAYQLGLDMLKRL----GTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             HHHHHHHHHHHHh----hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344333333220    1134567778888999999999988764432    2222446677777777776666666665


Q ss_pred             Hc
Q 044256          342 EN  343 (363)
Q Consensus       342 ~~  343 (363)
                      +.
T Consensus       148 ~~  149 (167)
T PF07035_consen  148 ER  149 (167)
T ss_pred             Hh
Confidence            54

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.33  E-value=4.8  Score=34.62  Aligned_cols=78  Identities=8%  Similarity=0.069  Sum_probs=51.3

Q ss_pred             HHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC----CcccHHHHHHHHHhcCChhHHHHHHH
Q 044256            8 LMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRP----NVTTCDTLITGLRRTGNMNLTLKLHQ   83 (363)
Q Consensus         8 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~   83 (363)
                      .++++.+....+.|...-....+...+.+  +.+++..+-+.+....+.+    =..+|..++....+.++...|.+.+.
T Consensus       245 mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~  322 (549)
T PF07079_consen  245 MQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLA  322 (549)
T ss_pred             HHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            45555556666677444444555554444  6677777776665442222    23578888999999999999999998


Q ss_pred             HHHh
Q 044256           84 EMVN   87 (363)
Q Consensus        84 ~~~~   87 (363)
                      -+..
T Consensus       323 lL~~  326 (549)
T PF07079_consen  323 LLKI  326 (549)
T ss_pred             HHHh
Confidence            7776

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.29  E-value=2.1  Score=30.50  Aligned_cols=54  Identities=9%  Similarity=0.047  Sum_probs=38.0

Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      ...++++++..++..+.-.. |-....-..-...+...|++.+|.++|+++.+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            34788999999988887653 2222333333445678899999999999998764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.25  E-value=4.5  Score=34.14  Aligned_cols=66  Identities=17%  Similarity=-0.009  Sum_probs=50.0

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc---hHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL---FVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ....++..+...+.+.|+++.|...+..+...+...   .+.+...-+......|+..+|...++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345578888899999999999999999988654111   344555566777788999999998887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.24  E-value=4  Score=33.49  Aligned_cols=136  Identities=12%  Similarity=0.135  Sum_probs=79.0

Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHh--cC----CHHHHHHHHHHHHHcCC---CCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          148 RLLELMMQRGLNPVIFTYTPLLNGYCL--VG----KVNVAIALFDSMARKGF---MPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~li~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                      .+++.+.+.|+.-+..+|-+.......  ..    ....|..+|+.|.+...   .++...+..++..  ..++   ...
T Consensus        83 ~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~---~e~  157 (297)
T PF13170_consen   83 DIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED---VEE  157 (297)
T ss_pred             HHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc---HHH
Confidence            344555556666666565543333322  22    35578999999998732   3455566666543  3333   333


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChH--HHHHHHHHHHhcCC--HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETF--TCNIFIDGLCKNGH--VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG  293 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  293 (363)
                      +.+++     +.+++.+...|...+..  ..+.++..+-....  ..++.++++.+.+.++++....|..+.-...-.+
T Consensus       158 l~~~~-----E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~  231 (297)
T PF13170_consen  158 LAERM-----EQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLED  231 (297)
T ss_pred             HHHHH-----HHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCC
Confidence            33444     46677777777765543  34444443333222  4588899999999999888777776654443333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.24  E-value=3.4  Score=32.59  Aligned_cols=74  Identities=14%  Similarity=0.096  Sum_probs=44.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          110 LCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       110 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                      -.+.|++++|.+.|+.+....+-                         -+-...+.-.++-++.+.++++.|+..+++..
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~-------------------------s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi   98 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPF-------------------------SPYSEQAQLDLAYAYYKNGEYDLALAYIDRFI   98 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCC-------------------------CcccHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            34566677777666666654211                         01224455566778888999999999999887


Q ss_pred             HcCCCCcHhHHHHHHHHHH
Q 044256          190 RKGFMPDVFSYSVLINGYC  208 (363)
Q Consensus       190 ~~~~~~~~~~~~~l~~~~~  208 (363)
                      ..-......-|..-|.+++
T Consensus        99 ~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          99 RLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HhCCCCCChhHHHHHHHHH
Confidence            7632223334444444443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.09  E-value=0.6  Score=30.60  Aligned_cols=60  Identities=8%  Similarity=0.223  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           42 DASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        42 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      +..+-++.+....+.|++.+..+.+++|.+.+++..|.++|+.++..-       .+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-------~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-------GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-------TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-------cChHHHHHHHHH
Confidence            566677777777888999999999999999999999999999888753       333446776654

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 ....

>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=93.09  E-value=2.1  Score=29.83  Aligned_cols=67  Identities=19%  Similarity=0.170  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      .......+......|+-++-.+++..+...+ .+++.....+..+|.+.|+..++.+++++.-+.|++
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            4455667788889999999999999987643 678888899999999999999999999999998874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=92.77  E-value=7.3  Score=35.22  Aligned_cols=55  Identities=16%  Similarity=0.177  Sum_probs=32.2

Q ss_pred             HHHHHHHHHhcCC--HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHH
Q 044256           27 FNSLIKGFCMEGN--IRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQE   84 (363)
Q Consensus        27 ~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   84 (363)
                      ++..=.+|.+-.+  +-+.+.-++++.++|-.|+..   .+...++-.|++.+|-++|.+
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHH
Confidence            3444445544443  334444456677777667754   344566677788888777754

>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=92.75  E-value=1.2  Score=33.66  Aligned_cols=73  Identities=12%  Similarity=0.009  Sum_probs=56.6

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF---GCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      +.|.+.|-.+...+.-- ++.....|...|. ..+.++++.++.+.++.   +-.+|+..+.+|.+.+.+.++++.|.
T Consensus       123 ~~A~~~fL~~E~~~~l~-t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELE-TAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCC-CHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            57888888887776655 7777777777666 67788999988887764   23567888999999999999888774

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.39  E-value=8.4  Score=35.04  Aligned_cols=183  Identities=16%  Similarity=0.067  Sum_probs=107.7

Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHH--HH-HHhcCCHHHHHHHHHHHHH-------cCCCCcHhHHHHHHHHHHhcC-
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLL--NG-YCLVGKVNVAIALFDSMAR-------KGFMPDVFSYSVLINGYCKNF-  211 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  211 (363)
                      ...+.++++.....|.. .......++  .+ +....|.+.|+.+|+...+       .|   .+....-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            56788888888777621 112222222  22 3456789999999998876       44   3334555666666543 


Q ss_pred             ----ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHh-cCCHHHHHHHHHHHHhccCcchHHHHHHHH
Q 044256          212 ----NVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK-NGHVLEVMELFPTLEISNCELFVEIFNSLI  286 (363)
Q Consensus       212 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  286 (363)
                          +.+.|..++.+....+             .|+....-..+.-... ..+...|.++|....+.|.. ....+..++
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g-------------~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~  369 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELG-------------NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALC  369 (552)
T ss_pred             CccccHHHHHHHHHHHHhcC-------------CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHH
Confidence                5666887777766654             2454433222222222 24578999999999988833 333333322


Q ss_pred             HHHH--hcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 044256          287 RGCC--KFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       287 ~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  345 (363)
                      -...  ...+...|..++.+..+.| .|....-...+..+.. ++++.+.-.+..+.+.|.
T Consensus       370 y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  370 YELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            2222  3357889999999998887 3332222233334444 777777777766666554

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.38  E-value=2  Score=31.78  Aligned_cols=112  Identities=13%  Similarity=0.147  Sum_probs=65.2

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHH---HhcCCHHHHHHHHHHHHhc-----CCCCCc-ccHHHHHHHHHhcC-
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGF---CMEGNIRDASQLVKKMATF-----GCRPNV-TTCDTLITGLRRTG-   73 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~---~~~~~~~~a~~~~~~m~~~-----~~~~~~-~~~~~l~~~~~~~~-   73 (363)
                      ++.|.+..+.....  .|.|+..++.-..++   ++..+..++..++++..+.     .+.|+- .++..+..++...+ 
T Consensus         7 FE~ark~aea~y~~--nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    7 FEHARKKAEAAYAK--NPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            56677777776665  676777665555544   4444434454444443321     235664 56666666665433 


Q ss_pred             ----------ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256           74 ----------NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        74 ----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                                .+++|...|+....        ..|+...|+.-+....      +|-++..++.+.+.
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~--------~~P~ne~Y~ksLe~~~------kap~lh~e~~~~~~  138 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVD--------EDPNNELYRKSLEMAA------KAPELHMEIHKQGL  138 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHH--------H-TT-HHHHHHHHHHH------THHHHHHHHHHSSS
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHh--------cCCCcHHHHHHHHHHH------hhHHHHHHHHHHHh
Confidence                      25677777777777        5799999998887764      45667777766543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.33  E-value=0.97  Score=36.99  Aligned_cols=100  Identities=13%  Similarity=-0.035  Sum_probs=71.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChh
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIK  331 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  331 (363)
                      .-|.++|.+++|+..|....... +.|+.++..-..+|.+...+..|..-.......+ ..-...|..-..+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            34788999999999999887664 5588888888889999999988888777766543 222344555555555567777


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHH
Q 044256          332 KENYLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       332 ~a~~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      +|.+-++..++  +.|+...+...
T Consensus       183 EAKkD~E~vL~--LEP~~~ELkK~  204 (536)
T KOG4648|consen  183 EAKKDCETVLA--LEPKNIELKKS  204 (536)
T ss_pred             HHHHhHHHHHh--hCcccHHHHHH
Confidence            77777777776  67775554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.18  E-value=6.4  Score=33.23  Aligned_cols=66  Identities=12%  Similarity=0.041  Sum_probs=48.8

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---cHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP---DVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                      ....+|..+...+.+.|.++.|...+..+...+..+   ++.....-.+..-..|+..+|+..++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345678888999999999999999999988753211   333444445556678999999988877765

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.05  E-value=0.47  Score=25.09  Aligned_cols=28  Identities=18%  Similarity=0.385  Sum_probs=17.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMAT   52 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~   52 (363)
                      .+++.+...|...|++++|..++++...
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            4566666777777777777777666543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=91.98  E-value=7.9  Score=33.81  Aligned_cols=80  Identities=9%  Similarity=-0.101  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHH-HHhcCChhHHHHHHHHH
Q 044256            7 ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITG-LRRTGNMNLTLKLHQEM   85 (363)
Q Consensus         7 A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~   85 (363)
                      ...+|..+..+  .+.|+..|...+..+.+.+.+.+.-.+|.+|+... +.++..|.....- |-...+.+.|..+|...
T Consensus        90 Iv~lyr~at~r--f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~H-p~~~dLWI~aA~wefe~n~ni~saRalflrg  166 (568)
T KOG2396|consen   90 IVFLYRRATNR--FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKH-PNNPDLWIYAAKWEFEINLNIESARALFLRG  166 (568)
T ss_pred             HHHHHHHHHHh--cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCchhHHhhhhhHHhhccchHHHHHHHHHH
Confidence            34566666655  44499999999999888888999999999999873 3344555433322 33334588899988888


Q ss_pred             Hhcc
Q 044256           86 VNGM   89 (363)
Q Consensus        86 ~~~~   89 (363)
                      ....
T Consensus       167 LR~n  170 (568)
T KOG2396|consen  167 LRFN  170 (568)
T ss_pred             hhcC
Confidence            7743

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.74  E-value=0.46  Score=23.52  Aligned_cols=27  Identities=11%  Similarity=0.257  Sum_probs=19.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      +-.+..++.+.|++++|.+.|+++.+.
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            445566677777788888888777765

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.46  E-value=0.55  Score=24.81  Aligned_cols=28  Identities=29%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          315 VAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       315 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+++.+...|...|++++|..++++..+
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            4667777888888888888888887765

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=91.27  E-value=0.39  Score=24.10  Aligned_cols=27  Identities=19%  Similarity=0.078  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          316 AYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +|..+...|...|++++|.+.|++..+
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            344555556666666666666666554

...

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.04  E-value=5.8  Score=30.48  Aligned_cols=31  Identities=19%  Similarity=0.132  Sum_probs=24.4

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                      +.||--+.+-+...|+.++|..+|+-.+...
T Consensus       237 TEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         237 TETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            3567777788889999999998888776654

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.88  E-value=10  Score=33.00  Aligned_cols=113  Identities=10%  Similarity=0.028  Sum_probs=69.9

Q ss_pred             hcCCHHHHH-HHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 044256          112 KDRLVDQTK-DLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIAL  184 (363)
Q Consensus       112 ~~~~~~~a~-~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  184 (363)
                      ..|++-.|- +++..+......|..      .....|+++.+.+.+...... +.....+..++++...+.|+++.|..+
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~  379 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALST  379 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHH
Confidence            445554443 344444444444443      445677777777776554432 234456788889999999999999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHh
Q 044256          185 FDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILN  226 (363)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (363)
                      -..|....+. +...........-..|-++++...++++...
T Consensus       380 a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        380 AEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            8888877654 3333332222334567778888777776543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.87  E-value=3  Score=33.89  Aligned_cols=96  Identities=16%  Similarity=0.148  Sum_probs=64.9

Q ss_pred             cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---Ccch------hhhccCChHHHHHHHHHHHHcCCCCchhhHH
Q 044256           96 YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI---NANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYT  166 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (363)
                      .+....+-..++..-....+++.+...+-+++...-   .++.      .++-.-++++++.++..-++.|+-||..+++
T Consensus        60 ~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllky~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   60 LPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLKYDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             CCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHccChHHHHHHHhCcchhccccchhhHH
Confidence            455566666666666667888888888877765321   1111      3344556667777777777778888888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARK  191 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~  191 (363)
                      .+|+.+.+.+++..|..+.-.|...
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888877777766655443

>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=9.2  Score=31.95  Aligned_cols=153  Identities=10%  Similarity=0.028  Sum_probs=99.1

Q ss_pred             HHHHHHcCCCCCchhhHHHHHHHHHhcC------------CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHH
Q 044256           11 FGSFIRRCYRPLNDVTFNSLIKGFCMEG------------NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLT   78 (363)
Q Consensus        11 ~~~~~~~~~~p~~~~~~~~li~~~~~~~------------~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a   78 (363)
                      |++..+.  .|.|..+|-.++..--..-            -.+.-+.++++.++.+ +.+...+..++..+.+..+.+..
T Consensus         8 l~~~v~~--~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l   84 (321)
T PF08424_consen    8 LNRRVRE--NPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKL   84 (321)
T ss_pred             HHHHHHh--CcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHH
Confidence            3444444  7778999999987543321            1456678899988874 34555667788888888888999


Q ss_pred             HHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH
Q 044256           79 LKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK---DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  155 (363)
                      .+.++++....       +-+...|...|.....   .-.++....+|.+..+.                    +.....
T Consensus        85 ~~~we~~l~~~-------~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~--------------------L~~~~~  137 (321)
T PF08424_consen   85 AKKWEELLFKN-------PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRA--------------------LSRRRS  137 (321)
T ss_pred             HHHHHHHHHHC-------CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHH--------------------HHHhhc
Confidence            99999999864       4568888888876654   23466777777665542                    111111


Q ss_pred             cC---CCCch-------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256          156 RG---LNPVI-------FTYTPLLNGYCLVGKVNVAIALFDSMARKGF  193 (363)
Q Consensus       156 ~~---~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  193 (363)
                      ..   ..+..       ..+.-+...+..+|..+.|..+++.+.+.++
T Consensus       138 ~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  138 GRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             cccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            00   01111       2233334445578999999999999888754

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.49  E-value=2.9  Score=32.03  Aligned_cols=23  Identities=13%  Similarity=0.261  Sum_probs=11.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTL  270 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~  270 (363)
                      ..+++.++-.|++++|..-++-.
T Consensus        39 hflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455          39 HFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             hHHHHHHhhcchHHHHHHHHHHH
Confidence            33444555555555555444433

>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=90.48  E-value=3.6  Score=31.20  Aligned_cols=79  Identities=14%  Similarity=-0.048  Sum_probs=58.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC---CCCccHHHHHHHHHHHHccCCh
Q 044256          254 LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK---NLVADVVAYNILIHALGKEGQI  330 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~  330 (363)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++..++.+..+.   +-.+|+..+.+|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445555 678888877777765556666666666665 67889999988887753   3367889999999999999998


Q ss_pred             hHHH
Q 044256          331 KKEN  334 (363)
Q Consensus       331 ~~a~  334 (363)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8874

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.45  E-value=0.59  Score=25.40  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=12.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhh
Q 044256          285 LIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       285 li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      |..+|...|+.+.|.++++++..
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.

>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=90.42  E-value=5.6  Score=29.28  Aligned_cols=32  Identities=13%  Similarity=0.118  Sum_probs=17.6

Q ss_pred             HHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHH
Q 044256           10 AFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRD   42 (363)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~   42 (363)
                      ....+.+.++.| ++..|..+++.+.+.|++..
T Consensus        16 YirSl~~~~i~~-~~~L~~lli~lLi~~~~~~~   47 (167)
T PF07035_consen   16 YIRSLNQHNIPV-QHELYELLIDLLIRNGQFSQ   47 (167)
T ss_pred             HHHHHHHcCCCC-CHHHHHHHHHHHHHcCCHHH
Confidence            334444555555 55566666666666665444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.30  E-value=6.9  Score=30.11  Aligned_cols=182  Identities=14%  Similarity=-0.009  Sum_probs=103.3

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCCccCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhcc
Q 044256           69 LRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN-VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKK  140 (363)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~  140 (363)
                      |-..|-+..|.--|.+...        +.|+ +.+||-|.-.+...|+++.|.+.|+...+.++.-+-       .+.-.
T Consensus        75 YDSlGL~~LAR~DftQaLa--------i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~  146 (297)
T COG4785          75 YDSLGLRALARNDFSQALA--------IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  146 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhh--------cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeec
Confidence            3445556666666666666        3444 778999999999999999999999999887655443       33456


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHH-HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHH
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFD-SMARKGFMPDVFSYSVLINGYCKNFNVEEAMNV  219 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  219 (363)
                      |++.-|.+-+-+.-+.+  |+..--...+-.--..-++.+|..-+. +....    |..-|...|-.|.- |+..+ ..+
T Consensus       147 gR~~LAq~d~~~fYQ~D--~~DPfR~LWLYl~E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yL-gkiS~-e~l  218 (297)
T COG4785         147 GRYKLAQDDLLAFYQDD--PNDPFRSLWLYLNEQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYL-GKISE-ETL  218 (297)
T ss_pred             CchHhhHHHHHHHHhcC--CCChHHHHHHHHHHhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHH-hhccH-HHH
Confidence            78888888777776664  221111112222223445666655443 33332    44445443333321 22111 111


Q ss_pred             HHHHHHhhH--HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 044256          220 SREMILNGF--KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN  274 (363)
Q Consensus       220 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  274 (363)
                      ++++....-  ..+-+        .=+.||-.+...+...|+.++|..+|+-.+..+
T Consensus       219 ~~~~~a~a~~n~~~Ae--------~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         219 MERLKADATDNTSLAE--------HLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHhhccchHHHHH--------HHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            222111100  00000        113467777788888888888888888877654

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=90.17  E-value=3.1  Score=28.64  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=19.2

Q ss_pred             HHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          267 FPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      +..+....+.|++.+...-+++|.+.+|+..|.++|+-+.
T Consensus        72 lN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   72 LNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3333334444555555555555555555555555554444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.10  E-value=8.8  Score=31.01  Aligned_cols=171  Identities=12%  Similarity=0.060  Sum_probs=104.2

Q ss_pred             HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH---------------hcCCCC
Q 044256          178 VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK---------------LCNVVP  242 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---------------~~~~~~  242 (363)
                      ..+|+++|.-+.++.  --..+-..++.++-...+..+|...+...+-+= ...++.+.               -.++..
T Consensus       149 s~KA~ELFayLv~hk--gk~v~~~~~ie~lwpe~D~kka~s~lhTtvyql-RKaLs~L~~ne~vts~d~~Ykld~~~~k~  225 (361)
T COG3947         149 SRKALELFAYLVEHK--GKEVTSWEAIEALWPEKDEKKASSLLHTTVYQL-RKALSRLNANEAVTSQDRKYKLDAGLPKY  225 (361)
T ss_pred             hhHHHHHHHHHHHhc--CCcccHhHHHHHHccccchhhHHHHHHHHHHHH-HHHhchhccCceEEEcCCceEEecCCccc
Confidence            356788887777662  123444556666666666667766665543211 11111111               123344


Q ss_pred             ChHHHHHHHHHHHh-cCCHHHHHHHHHHHHhccCc----------------chHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 044256          243 ETFTCNIFIDGLCK-NGHVLEVMELFPTLEISNCE----------------LFVEIFNSLIRGCCKFGIFEIASELFNKL  305 (363)
Q Consensus       243 ~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~----------------~~~~~~~~li~~~~~~~~~~~a~~~~~~~  305 (363)
                      |..-|...+..... .-.++++.++.......-++                .-..+++.....|..+|.+.+|.++.+..
T Consensus       226 Dv~e~es~~rqi~~inltide~kelv~~ykgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~  305 (361)
T COG3947         226 DVQEYESLARQIEAINLTIDELKELVGQYKGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRA  305 (361)
T ss_pred             cHHHHHHHhhhhhccccCHHHHHHHHHHhcCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            55555555544332 23355555555544321111                01223455567889999999999999999


Q ss_pred             hhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHHH
Q 044256          306 SCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE-----NGCALDVDTF  352 (363)
Q Consensus       306 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~  352 (363)
                      ...+ +.+...|-.++..+...|+--.|.+-++++-+     .|+..+...+
T Consensus       306 ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         306 LTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             hhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            9875 67888999999999999998888888887753     2776665543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.09  E-value=3  Score=34.30  Aligned_cols=92  Identities=15%  Similarity=0.055  Sum_probs=66.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHH
Q 044256          205 NGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFN  283 (363)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  283 (363)
                      .-|.+.|.+++|++++.+.+...              | +.+++..-..+|.+...+..|+.-....+..+ ..-...|+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~--------------P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYS  169 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY--------------PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYS  169 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC--------------CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHH
Confidence            34788999999999988766543              5 78888888899999999988887777666544 23344555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCCcc
Q 044256          284 SLIRGCCKFGIFEIASELFNKLSCKNLVAD  313 (363)
Q Consensus       284 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  313 (363)
                      .-+.+-...|+..+|.+-++..++.  .|+
T Consensus       170 RR~~AR~~Lg~~~EAKkD~E~vL~L--EP~  197 (536)
T KOG4648|consen  170 RRMQARESLGNNMEAKKDCETVLAL--EPK  197 (536)
T ss_pred             HHHHHHHHHhhHHHHHHhHHHHHhh--Ccc
Confidence            5555555667777777777777665  455

>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=90.09  E-value=4.8  Score=29.89  Aligned_cols=75  Identities=17%  Similarity=0.143  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcC----C-------hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCCh
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFG----I-------FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQI  330 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----~-------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  330 (363)
                      +|+.-|++.+..+ |-...++..+..+|...+    +       +++|...|++....  .|+..+|+.-+...      
T Consensus        53 dAisK~eeAL~I~-P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~------  123 (186)
T PF06552_consen   53 DAISKFEEALKIN-PNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMA------  123 (186)
T ss_dssp             HHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHH------
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHH------
Confidence            3444444444443 333467777777776543    2       45555555555554  68888888777765      


Q ss_pred             hHHHHHHHHHHHcCC
Q 044256          331 KKENYLLLSMEENGC  345 (363)
Q Consensus       331 ~~a~~~~~~m~~~g~  345 (363)
                      ++|-++..++.+.+.
T Consensus       124 ~kap~lh~e~~~~~~  138 (186)
T PF06552_consen  124 AKAPELHMEIHKQGL  138 (186)
T ss_dssp             HTHHHHHHHHHHSSS
T ss_pred             HhhHHHHHHHHHHHh
Confidence            347777777766543

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=89.90  E-value=0.11  Score=37.39  Aligned_cols=111  Identities=16%  Similarity=0.158  Sum_probs=64.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH--------HHHHHHH
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV--------VAYNILI  321 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~li  321 (363)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....  ..++.        ..|...+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~--yd~~~~~~~c~~~~l~~~a~   90 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN--YDLDKALRLCEKHGLYEEAV   90 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS--S-CTHHHHHHHTTTSHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc--cCHHHHHHHHHhcchHHHHH
Confidence            4566667778888888888888665455677788888888888777777777763222  11111        1233333


Q ss_pred             HHHHccCChhHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHhhc
Q 044256          322 HALGKEGQIKKENYLLLSMEEN-------GCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~  362 (363)
                      ..|.+.|++++|..++..+..-       .-.++...|..++..|..+
T Consensus        91 ~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~  138 (143)
T PF00637_consen   91 YLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDS  138 (143)
T ss_dssp             HHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTS
T ss_pred             HHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            4455555555555432222211       1135677888888877654

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.86  E-value=4.1  Score=31.27  Aligned_cols=79  Identities=15%  Similarity=0.084  Sum_probs=55.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      +.+..++.+.+.++..+++...+.-.+.+ +.|...-..+++.++-.|+|++|..-++..-+....    ..+-...|..
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~----~t~~a~lyr~   77 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQ----DTVGASLYRH   77 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcc----cchHHHHHHH
Confidence            34556677788889999999888777663 445667788899999999999998877766653210    2333556666


Q ss_pred             HHHH
Q 044256          106 LIDG  109 (363)
Q Consensus       106 ll~~  109 (363)
                      +|++
T Consensus        78 lir~   81 (273)
T COG4455          78 LIRC   81 (273)
T ss_pred             HHHH
Confidence            6654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=89.85  E-value=7.6  Score=29.92  Aligned_cols=182  Identities=15%  Similarity=0.042  Sum_probs=89.5

Q ss_pred             cCCHHHHHHHHHHHHhcCCCC-CcccHHHHHHHHHhcCChhHHHHHHHHHHhc-cCCCCCccCCchhhHHHHHHHHHhcC
Q 044256           37 EGNIRDASQLVKKMATFGCRP-NVTTCDTLITGLRRTGNMNLTLKLHQEMVNG-MGDFGGIYKPNVFCYGSLIDGLCKDR  114 (363)
Q Consensus        37 ~~~~~~a~~~~~~m~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~ll~~~~~~~  114 (363)
                      .+....+...+.......... ....+......+...+.+..+...+...... .      .......+......+...+
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~  109 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELEL------LPNLAEALLNLGLLLEALG  109 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhh------ccchHHHHHHHHHHHHHHh
Confidence            355556666666655442110 2345566666677777777777777766642 1      2444556666666666677


Q ss_pred             CHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHHHHHHcCC--CCchhhHHHHHHHHHhcCCHHHHHHH
Q 044256          115 LVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLELMMQRGL--NPVIFTYTPLLNGYCLVGKVNVAIAL  184 (363)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~  184 (363)
                      .+..+...+.........+..        .+...++++.+...+........  ......+......+...++.+.+...
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  189 (291)
T COG0457         110 KYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALEL  189 (291)
T ss_pred             hHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHH
Confidence            777777777776654332211        23344444444444444422110  01112222222223444555555555


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          185 FDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                      +..............+..+...+...++++.+...+....
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  229 (291)
T COG0457         190 LEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKAL  229 (291)
T ss_pred             HHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHH
Confidence            5555443111023344444444555555555554444443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=89.71  E-value=11  Score=31.54  Aligned_cols=47  Identities=9%  Similarity=0.160  Sum_probs=22.5

Q ss_pred             hcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256           71 RTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKD  121 (363)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  121 (363)
                      ...+.++|+..+......-.+    ...-..++..+..+.++.|.+++++.
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~----~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSD----LMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHH----HHHHHHHhccchhhhhhhHHHHHHHH
Confidence            344555555555544432200    11123455556666666666665543

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.59  E-value=5.6  Score=30.14  Aligned_cols=90  Identities=6%  Similarity=0.022  Sum_probs=54.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCcc------cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           31 IKGFCMEGNIRDASQLVKKMATFGCRPNVT------TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        31 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ..-+.++|++++|..-|...+..  -|...      .|..-..++.+.+.++.|+.--...++.+       +.......
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-------pty~kAl~  172 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-------PTYEKALE  172 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-------chhHHHHH
Confidence            34466778888888888877765  23322      23334455667777777777777776643       11122222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .-..+|.+...++.|+.-|.++.+.
T Consensus       173 RRAeayek~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  173 RRAEAYEKMEKYEEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHh
Confidence            3344566667777777777776654

>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=89.41  E-value=1.3  Score=22.01  Aligned_cols=29  Identities=17%  Similarity=0.203  Sum_probs=19.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      .+|..+...|...|++++|...|++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            35666666677777777777777666543

...

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.18  E-value=7  Score=29.66  Aligned_cols=94  Identities=17%  Similarity=-0.012  Sum_probs=66.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCcch-----HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc
Q 044256          253 GLCKNGHVLEVMELFPTLEISNCELF-----VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE  327 (363)
Q Consensus       253 ~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  327 (363)
                      -+.+.|++++|..-|...+..- ++.     ...|..-..++.+.+.++.|+.-..+.++.+ +........-..+|-+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            3567899999999998888663 332     2334444556778888999988888888764 22334444445678888


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHH
Q 044256          328 GQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       328 g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      ..+++|+.-|+.+++  ..|...
T Consensus       182 ek~eealeDyKki~E--~dPs~~  202 (271)
T KOG4234|consen  182 EKYEEALEDYKKILE--SDPSRR  202 (271)
T ss_pred             hhHHHHHHHHHHHHH--hCcchH
Confidence            999999999999988  455554

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.63  E-value=16  Score=32.14  Aligned_cols=166  Identities=12%  Similarity=0.027  Sum_probs=104.6

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      +.|.....+++..+...-.+.-++.+..+|...|  .+...|..++++|..+ ..++-..+++++.+.+.          
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df----------  129 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF----------  129 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc----------
Confidence            4566677788888888888888888888888874  4677888889988887 55667777777666541          


Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc-----hHHHHHHHHHHHHhcCChHHHHHHHHHhhh-CCCCc
Q 044256          239 NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL-----FVEIFNSLIRGCCKFGIFEIASELFNKLSC-KNLVA  312 (363)
Q Consensus       239 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~  312 (363)
                         .|++.-..|...| ..++...+...|.++...-++.     -...|.-|...  -..+.+....+...+.. .|...
T Consensus       130 ---nDvv~~ReLa~~y-Ekik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~  203 (711)
T COG1747         130 ---NDVVIGRELADKY-EKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGR  203 (711)
T ss_pred             ---hhHHHHHHHHHHH-HHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccch
Confidence               2333333344444 3477777777777776543221     11234444332  13456666666666654 23344


Q ss_pred             cHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          313 DVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       313 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      -...+..+-.-|....++++|++++...++.
T Consensus       204 ~~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         204 GSVLMQDVYKKYSENENWTEAIRILKHILEH  234 (711)
T ss_pred             HHHHHHHHHHHhccccCHHHHHHHHHHHhhh
Confidence            4555666666677777777777777755543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=88.14  E-value=10  Score=29.17  Aligned_cols=225  Identities=18%  Similarity=0.028  Sum_probs=127.3

Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHH
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYK-PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLL  150 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  150 (363)
                      .+....+...+.......      .. .....+......+...+.+..+...+.......                    
T Consensus        36 ~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------   89 (291)
T COG0457          36 LGELAEALELLEEALELL------PNSDLAGLLLLLALALLKLGRLEEALELLEKALELE--------------------   89 (291)
T ss_pred             HhhHHHHHHHHHHHHhcC------ccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhh--------------------
Confidence            345556666666666533      11 125667777777888888888888777766420                    


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHH-HHHhcCChhHHHHHHHHHHHhhHH
Q 044256          151 ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLIN-GYCKNFNVEEAMNVSREMILNGFK  229 (363)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~  229 (363)
                            ........+......+...+++..+...+.........+ ......... .+...|+++.+...+.+.......
T Consensus        90 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  162 (291)
T COG0457          90 ------LLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPE  162 (291)
T ss_pred             ------hccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence                  012233445555555666666777777777666543222 111222222 566777777777666655331100


Q ss_pred             HHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          230 KIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL-FVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                                .......+......+...++.+.+...+....... +. ....+..+...+...++++.|...+......
T Consensus       163 ----------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         163 ----------LNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL  231 (291)
T ss_pred             ----------ccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh
Confidence                      00112223333333556677777777777776653 33 3566667777777777777777777777765


Q ss_pred             CCCcc-HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          309 NLVAD-VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       309 ~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .  |+ ...+..+...+...+..+++...+.+...
T Consensus       232 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         232 D--PDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             C--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2  22 33444444444455667777777777665

>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=88.04  E-value=0.96  Score=21.14  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q 044256           27 FNSLIKGFCMEGNIRDASQLVK   48 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~   48 (363)
                      ...+...+...|++++|..+++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            3445556666666666666554

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

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.87  E-value=13  Score=30.09  Aligned_cols=123  Identities=8%  Similarity=0.079  Sum_probs=87.6

Q ss_pred             CCCChHHHHHHHHHHHh-cC-CHHHHHHHHHHHHhc-cCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC-CCCccHH
Q 044256          240 VVPETFTCNIFIDGLCK-NG-HVLEVMELFPTLEIS-NCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK-NLVADVV  315 (363)
Q Consensus       240 ~~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~  315 (363)
                      +.-|..+...+++.... .+ ....-.++.+-+... +-.++..+...++..++..+++.+-.++|+..... +..-|..
T Consensus       160 Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~r  239 (292)
T PF13929_consen  160 IIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPR  239 (292)
T ss_pred             eeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCc
Confidence            44567777777777665 22 233333444444433 23677788889999999999999999999988765 5567899


Q ss_pred             HHHHHHHHHHccCChhHHHHHHHH-----HHHcCCCCCHHHHHHHHHHHhhc
Q 044256          316 AYNILIHALGKEGQIKKENYLLLS-----MEENGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~~~-----m~~~g~~p~~~~~~~ll~~~~~~  362 (363)
                      .|..+|......|+..-..++.++     +.+.|+..+...-..+-+.|.+.
T Consensus       240 pW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~v  291 (292)
T PF13929_consen  240 PWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKKV  291 (292)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHhc
Confidence            999999999999998877777665     23446677776666666655543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=87.60  E-value=8.4  Score=27.57  Aligned_cols=113  Identities=19%  Similarity=0.147  Sum_probs=70.0

Q ss_pred             CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----cchHHHHH
Q 044256          211 FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET--FTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----ELFVEIFN  283 (363)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~  283 (363)
                      |..-..++++.+.+.    .....|.+.+..++.  ...+.++......+++.-.+.+++.+.....     ..+...|.
T Consensus         8 g~~~~nL~~w~~fi~----~~~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~   83 (145)
T PF13762_consen    8 GNVLANLEVWKTFIN----SHLPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFH   83 (145)
T ss_pred             cchhhhHHHHHHHHH----HHHHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHH
Confidence            444444444444432    334444544555554  3467777777777888888888877743210     23455677


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc
Q 044256          284 SLIRGCCKFGI-FEIASELFNKLSCKNLVADVVAYNILIHALGKE  327 (363)
Q Consensus       284 ~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  327 (363)
                      +++.+.++..- --.+..+|.-+.+.+.++++.-|..++.++.+-
T Consensus        84 ~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   84 IIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence            88888766555 344566777777767788888888888877664

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=87.48  E-value=1.8  Score=21.10  Aligned_cols=30  Identities=7%  Similarity=-0.010  Sum_probs=20.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKG   33 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~   33 (363)
                      |+++.|..+|+.+...  .|.++..|...+..
T Consensus         1 ~~~~~~r~i~e~~l~~--~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEK--FPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHH--CCCChHHHHHHHHH
Confidence            4677788888888776  45567777776653

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.46  E-value=13  Score=33.42  Aligned_cols=132  Identities=15%  Similarity=0.136  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      .-+.+++.+.+.|-.++|+++-         +|..   .-.....+.|+++.|.++..+..            +..-|..
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s---------~D~d---~rFelal~lgrl~iA~~la~e~~------------s~~Kw~~  671 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELS---------TDPD---QRFELALKLGRLDIAFDLAVEAN------------SEVKWRQ  671 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcC---------CChh---hhhhhhhhcCcHHHHHHHHHhhc------------chHHHHH
Confidence            4556667777777766666542         2322   12334456788888877755443            3556888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALF  185 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  185 (363)
                      |.++....+++..|.+.|....+-+-. --.+...|+-+....+-....+.|      ..|....+|...|+++++.+++
T Consensus       672 Lg~~al~~~~l~lA~EC~~~a~d~~~L-lLl~t~~g~~~~l~~la~~~~~~g------~~N~AF~~~~l~g~~~~C~~lL  744 (794)
T KOG0276|consen  672 LGDAALSAGELPLASECFLRARDLGSL-LLLYTSSGNAEGLAVLASLAKKQG------KNNLAFLAYFLSGDYEECLELL  744 (794)
T ss_pred             HHHHHhhcccchhHHHHHHhhcchhhh-hhhhhhcCChhHHHHHHHHHHhhc------ccchHHHHHHHcCCHHHHHHHH
Confidence            888888888888888888776543210 002334455444444444444444      2344455677889999999888


Q ss_pred             HHH
Q 044256          186 DSM  188 (363)
Q Consensus       186 ~~~  188 (363)
                      ..-
T Consensus       745 i~t  747 (794)
T KOG0276|consen  745 IST  747 (794)
T ss_pred             Hhc
Confidence            654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.03  E-value=33  Score=33.79  Aligned_cols=31  Identities=10%  Similarity=0.133  Sum_probs=21.8

Q ss_pred             CCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHH
Q 044256           97 KPNVFCYGSLIDGLCKDR--LVDQTKDLFMEMKD  128 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~  128 (363)
                      .|+ .....+|.+|++.+  .++.++....+...
T Consensus       788 ~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  788 APD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            455 44556888888887  67777777777664

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.90  E-value=2.3  Score=23.12  Aligned_cols=22  Identities=14%  Similarity=0.098  Sum_probs=10.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 044256          251 IDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       251 l~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      ..+|...|+.+.|.++++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHH
Confidence            3444444445555444444443

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.90  E-value=11  Score=28.40  Aligned_cols=88  Identities=10%  Similarity=0.000  Sum_probs=47.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHH-----HHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          170 NGYCLVGKVNVAIALFDSMARKGFMPDVFSYS-----VLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      ..+...++++.|+..++.....   |....+.     .|.......|.+++|+.+++.....+              ...
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~--------------w~~  159 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES--------------WAA  159 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc--------------HHH
Confidence            4455667777777777665543   1222222     23344556677777766655543222              111


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISN  274 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  274 (363)
                      .....-.+++...|+.++|..-|++.....
T Consensus       160 ~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         160 IVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            122223455666677777777777666553

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.86  E-value=13  Score=29.04  Aligned_cols=103  Identities=12%  Similarity=0.147  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc-CCHHHHHHHHHHHHhc--cC
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN-GHVLEVMELFPTLEIS--NC  275 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~--~~  275 (363)
                      +|...-. |.+..++.+|...++..+     .+|-.|.+-...  ...+..+...|-.. .++++|+..|+..-+.  +-
T Consensus        76 ~YveA~~-cykk~~~~eAv~cL~~ai-----eIyt~~Grf~~a--Ak~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~e  147 (288)
T KOG1586|consen   76 TYVEAAN-CYKKVDPEEAVNCLEKAI-----EIYTDMGRFTMA--AKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGE  147 (288)
T ss_pred             HHHHHHH-HhhccChHHHHHHHHHHH-----HHHHhhhHHHHH--HhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcch
Confidence            3333333 344557777777766653     445544432211  11222334444333 5566666666665432  11


Q ss_pred             cchHHHHHH---HHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          276 ELFVEIFNS---LIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       276 ~~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      ..+...--.   ....-+..+++.+|..+|+++....
T Consensus       148 es~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s  184 (288)
T KOG1586|consen  148 ESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSS  184 (288)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            111111112   2222334566666666666665543

>KOG2422 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.79  E-value=23  Score=31.76  Aligned_cols=175  Identities=10%  Similarity=-0.023  Sum_probs=106.6

Q ss_pred             cCChhHHHHHHHHHHhccCCCCC--cc---CCchhhHHHHHHHHHhcCCHHHHHHH-------HHHHHHcCCCcch----
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGG--IY---KPNVFCYGSLIDGLCKDRLVDQTKDL-------FMEMKDKGINANT----  135 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~--~~---~~~~~~~~~ll~~~~~~~~~~~a~~~-------~~~~~~~~~~~~~----  135 (363)
                      ...++++...|......-...+-  .+   +-.+.+.-.+..++-..|+.+.+-.+       |+......+.|..    
T Consensus       251 s~sYeqaq~~F~~av~~~d~n~v~~lL~ssPYHvdsLLqva~~~r~qgD~e~aadLieR~Ly~~d~a~hp~F~~~sg~cR  330 (665)
T KOG2422|consen  251 SNSYEQAQRDFYLAVIVHDPNNVLILLISSPYHVDSLLQVADIFRFQGDREMAADLIERGLYVFDRALHPNFIPFSGNCR  330 (665)
T ss_pred             chHHHHHHHHHHHHHhhcCCcceeeeeccCCcchhHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHhcccccccccccc
Confidence            44567888888777654311000  01   11233344555667778886655554       4445555555544    


Q ss_pred             --------------------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH-hcCCHHHHHHHHHHHHHcC--
Q 044256          136 --------------------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYC-LVGKVNVAIALFDSMARKG--  192 (363)
Q Consensus       136 --------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a~~~~~~~~~~~--  192 (363)
                                          .+.+.|-+..|.++.+.+.+.+..-|+.....+|+.|+ ++.++.--+++++.....+  
T Consensus       331 L~y~~~eNR~FyL~l~r~m~~l~~RGC~rTA~E~cKlllsLdp~eDPl~~l~~ID~~ALrareYqwiI~~~~~~e~~n~l  410 (665)
T KOG2422|consen  331 LPYIYPENRQFYLALFRYMQSLAQRGCWRTALEWCKLLLSLDPSEDPLGILYLIDIYALRAREYQWIIELSNEPENMNKL  410 (665)
T ss_pred             CcccchhhHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCcCCchhHHHHHHHHHHHHHhHHHHHHHHHHHHhhccH
Confidence                                44678899999999999988876557777777888875 5678888888887765442  


Q ss_pred             -CCCcHhHHHHHHHHHHhcCC---hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHH
Q 044256          193 -FMPDVFSYSVLINGYCKNFN---VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFT  246 (363)
Q Consensus       193 -~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (363)
                       .-|+..--.++...|.....   -+.|...+.++.+..+..+.+.+....+.|+..|
T Consensus       411 ~~~PN~~yS~AlA~f~l~~~~~~~rqsa~~~l~qAl~~~P~vl~eLld~~~l~~da~~  468 (665)
T KOG2422|consen  411 SQLPNFGYSLALARFFLRKNEEDDRQSALNALLQALKHHPLVLSELLDELLLGDDALT  468 (665)
T ss_pred             hhcCCchHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhCcHHHHHHHHhccCCchhhh
Confidence             34444333445555555444   4567777777776655445555555555555443

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=86.61  E-value=18  Score=30.30  Aligned_cols=125  Identities=4%  Similarity=-0.071  Sum_probs=82.0

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh---cCChhHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR---TGNMNLTLK   80 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~   80 (363)
                      .+.-+.+++++++.  .|.+...+..++..+.+..+.+...+-|+++.... +-+...|...+.....   .-.+.....
T Consensus        47 ~E~klsilerAL~~--np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~  123 (321)
T PF08424_consen   47 AERKLSILERALKH--NPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRD  123 (321)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHH
Confidence            35567889999888  67689999999999999999999999999999873 3356677777765543   224556666


Q ss_pred             HHHHHHhccCCCCCc----cCCchh-------hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256           81 LHQEMVNGMGDFGGI----YKPNVF-------CYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~----~~~~~~-------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                      +|.+....-......    ..+-..       ++..+......+|..+.|..+++.+.+..+
T Consensus       124 ~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  124 VYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            665554322110000    111112       233333445567888888888888887654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.56  E-value=1.2  Score=21.87  Aligned_cols=24  Identities=13%  Similarity=0.041  Sum_probs=15.2

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHH
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+..++.+.|++++|.+.|+++++
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHH
Confidence            344555666677777777766665

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=86.44  E-value=16  Score=29.54  Aligned_cols=194  Identities=12%  Similarity=0.109  Sum_probs=103.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcch---------------hhhccCChHHHHHHHHHHH----HcCCCCchhhH
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGINANT---------------LLCKKTKLVEANRLLELMM----QRGLNPVIFTY  165 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~  165 (363)
                      .+.+-..+.+++++|+..+.++...|+..+.               .+...|++..-.+......    +..-+......
T Consensus         8 e~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Kii   87 (421)
T COG5159           8 ELANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKII   87 (421)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHH
Confidence            3455567888999999999999998877655               4455555554444332221    11112233445


Q ss_pred             HHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCcHh-----HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          166 TPLLNGYCLV-GKVNVAIALFDSMARKGFMPDVF-----SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       166 ~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                      .+++..+... ..++..+.+.....++.......     .=..++..+.+.|.+.+|+.+...+        +.++++..
T Consensus        88 rtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~l--------l~ElKk~D  159 (421)
T COG5159          88 RTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPL--------LHELKKYD  159 (421)
T ss_pred             HHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH--------HHHHHhhc
Confidence            5566665543 34566666666555542221111     1234677888999999999887654        44444444


Q ss_pred             CCCChHHHHHH-HHHHHhcCCHHHHHHHHHHHHhc----cCcchHHHHHHHHHHH--HhcCChHHHHHHHHHhh
Q 044256          240 VVPETFTCNIF-IDGLCKNGHVLEVMELFPTLEIS----NCELFVEIFNSLIRGC--CKFGIFEIASELFNKLS  306 (363)
Q Consensus       240 ~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~--~~~~~~~~a~~~~~~~~  306 (363)
                      -+|+..+...+ -.+|....++.++..-+......    -+||-...-.-|+.+-  |.-.++..|..+|-+..
T Consensus       160 DK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~  233 (421)
T COG5159         160 DKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLSGILHCDDRDYKTASSYFIEAL  233 (421)
T ss_pred             CccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhccceeeccccchhHHHHHHHHH
Confidence            45554433222 23455555555554444333321    2455444444444432  23334555555554443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.34  E-value=6.5  Score=31.72  Aligned_cols=60  Identities=12%  Similarity=0.058  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      +++.....|...|.+.+|.++.+...... +.+...+-.|+..+...|+--.|.+-++.+.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            45556678899999999999999999887 8889999999999999999888877777664

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.09  E-value=3.7  Score=22.82  Aligned_cols=35  Identities=14%  Similarity=0.262  Sum_probs=23.7

Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      ..+.|-.+++..++++|.+.|+..+...+..+++.
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            34566666777777777777777777777666653

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.86  E-value=12  Score=33.59  Aligned_cols=46  Identities=13%  Similarity=0.041  Sum_probs=23.3

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256           35 CMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMV   86 (363)
Q Consensus        35 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   86 (363)
                      .+.|+++.|.++..+..      +..-|..|.++..+.+++..|.+.|....
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~  693 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRAR  693 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhc
Confidence            34555555555443322      33345555555555555555555555443

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=85.74  E-value=4.7  Score=23.00  Aligned_cols=34  Identities=18%  Similarity=0.032  Sum_probs=17.4

Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044256          321 IHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM  356 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  356 (363)
                      .-++.+.|++++|.+..+.+++  +.|+..-...|-
T Consensus         8 Aig~ykl~~Y~~A~~~~~~lL~--~eP~N~Qa~~L~   41 (53)
T PF14853_consen    8 AIGHYKLGEYEKARRYCDALLE--IEPDNRQAQSLK   41 (53)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHH--HTTS-HHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHh--hCCCcHHHHHHH
Confidence            3455566666666666666665  455554444433

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=85.67  E-value=30  Score=32.07  Aligned_cols=186  Identities=15%  Similarity=0.138  Sum_probs=108.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHh-cCCCCCcc--cHHHHHHHHH-hcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMAT-FGCRPNVT--TCDTLITGLR-RTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~--~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      +...|..+|.         .|+..++-+.+ ..++|..+  ++-.+...+. ...+.+.|...+++.....      .++
T Consensus        29 ~l~~Y~kLI~---------~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~------~~~   93 (608)
T PF10345_consen   29 QLKQYYKLIA---------TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLC------ERH   93 (608)
T ss_pred             hHHHHHHHHH---------HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc------ccc
Confidence            4556666664         45566666663 33344333  3444555554 6778999999998776544      122


Q ss_pred             c-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----cch---------hhhccCChHHHHHHHHHHHHcC---
Q 044256           99 N-----VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN----ANT---------LLCKKTKLVEANRLLELMMQRG---  157 (363)
Q Consensus        99 ~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~---------~~~~~~~~~~a~~~~~~~~~~~---  157 (363)
                      +     -..-..++..+.+.+... |...+++.++.--.    +..         .....+++..|.+.++.+....   
T Consensus        94 ~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~  172 (608)
T PF10345_consen   94 RLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQR  172 (608)
T ss_pred             chHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc
Confidence            2     112234566666666655 88888887654222    111         1112378888888888776532   


Q ss_pred             CCCchhhHHHHHHHHH--hcCCHHHHHHHHHHHHHcC---------CCCcHhHHHHHHHHHH--hcCChhHHHHHHHHHH
Q 044256          158 LNPVIFTYTPLLNGYC--LVGKVNVAIALFDSMARKG---------FMPDVFSYSVLINGYC--KNFNVEEAMNVSREMI  224 (363)
Q Consensus       158 ~~~~~~~~~~li~~~~--~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~  224 (363)
                      ..|-..++..++.+..  +.+..+.+.+..+.+....         ..|-..+|..+++.++  ..|+++.+...++.+.
T Consensus       173 ~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  173 GDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             CCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2344555555555544  3455677777777663321         2345667777776554  5788778887777664

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 [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.25  E-value=30  Score=31.63  Aligned_cols=113  Identities=12%  Similarity=0.009  Sum_probs=57.4

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHH-----HHhcCCHHHHHHHHHHHHh-------cCCCCCcccHHHHHHHHHh
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKG-----FCMEGNIRDASQLVKKMAT-------FGCRPNVTTCDTLITGLRR   71 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~-----~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~l~~~~~~   71 (363)
                      ...|.+.++.....|.    ...-..+..+     +....+++.|+.+|+.+.+       .|   .......+..+|.+
T Consensus       228 ~~~a~~~~~~~a~~g~----~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~  300 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH----SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQ  300 (552)
T ss_pred             hhHHHHHHHHHHhhcc----hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhc
Confidence            3456666666666532    2222222222     2345677788887777765       33   33345556666655


Q ss_pred             cC-----ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh-cCCHHHHHHHHHHHHHcC
Q 044256           72 TG-----NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK-DRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        72 ~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~  130 (363)
                      ..     +...|+.++...-..+       .|+....-..+..... ..+...|.++|....+.|
T Consensus       301 g~~~~~~d~~~A~~~~~~aA~~g-------~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G  358 (552)
T KOG1550|consen  301 GLGVEKIDYEKALKLYTKAAELG-------NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAG  358 (552)
T ss_pred             CCCCccccHHHHHHHHHHHHhcC-------CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcC
Confidence            33     4455777777666655       3333332222222222 234455566655555443

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.11  E-value=26  Score=30.82  Aligned_cols=104  Identities=15%  Similarity=-0.000  Sum_probs=68.2

Q ss_pred             hhhhhHHHHHHHHH---HcCC--CCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHh-------cCCCCCc--------
Q 044256            2 SKVLGALMAFGSFI---RRCY--RPL--NDVTFNSLIKGFCMEGNIRDASQLVKKMAT-------FGCRPNV--------   59 (363)
Q Consensus         2 g~~~~A~~~~~~~~---~~~~--~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-------~~~~~~~--------   59 (363)
                      |++..|.+++-..-   ..|.  .|.  +-..||.+.-.+.+.|.+..+..+|.+.++       .|++|..        
T Consensus       254 gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nk  333 (696)
T KOG2471|consen  254 GNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNK  333 (696)
T ss_pred             cchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhccc
Confidence            67777777765432   1121  110  112357776667777777777777776653       4655532        


Q ss_pred             ---ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhc
Q 044256           60 ---TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKD  113 (363)
Q Consensus        60 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  113 (363)
                         .+|| ..-.|...|++-.|.+.|......       +..++..|-.|..+|...
T Consensus       334 s~eilYN-cG~~~Lh~grPl~AfqCf~~av~v-------fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  334 SMEILYN-CGLLYLHSGRPLLAFQCFQKAVHV-------FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             chhhHHh-hhHHHHhcCCcHHHHHHHHHHHHH-------HhcCcHHHHHHHHHHHHH
Confidence               1233 334567899999999999999876       478899999999988753

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.85  E-value=12  Score=26.79  Aligned_cols=81  Identities=14%  Similarity=0.225  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhCC-----CCccHHHHHHHHHHHHccCC-hhHHHHHHHHHHHcCCCCCHHHHHH
Q 044256          281 IFNSLIRGCCKFGIFEIASELFNKLSCKN-----LVADVVAYNILIHALGKEGQ-IKKENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       281 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      ..+.++.-.+..+++.....+++.+....     -..+...|..++.+..+..- ---+..+|+-|.+.+.+++..-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            45677777777788888888887774321     03466789999999876665 4457888999998889999999999


Q ss_pred             HHHHHhh
Q 044256          355 LMISFLQ  361 (363)
Q Consensus       355 ll~~~~~  361 (363)
                      +++++.+
T Consensus       121 li~~~l~  127 (145)
T PF13762_consen  121 LIKAALR  127 (145)
T ss_pred             HHHHHHc
Confidence            9999875

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=84.39  E-value=28  Score=30.55  Aligned_cols=91  Identities=11%  Similarity=0.013  Sum_probs=47.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHH
Q 044256           32 KGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLC  111 (363)
Q Consensus        32 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~  111 (363)
                      ......|.++.+...+...... +.....+...+++..-+.|+++.|...-+-|....       -.+..+........-
T Consensus       331 ~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~e-------ie~~ei~~iaa~sa~  402 (831)
T PRK15180        331 VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNE-------IEDEEVLTVAAGSAD  402 (831)
T ss_pred             HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccc-------cCChhheeeecccHH
Confidence            3345566777766666554432 22344455666666666677777777666665543       122222222222223


Q ss_pred             hcCCHHHHHHHHHHHHHcC
Q 044256          112 KDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus       112 ~~~~~~~a~~~~~~~~~~~  130 (363)
                      ..|-++++...++++....
T Consensus       403 ~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        403 ALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHhHHHHHHHHHHHHhccC
Confidence            3455666666666665443

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=84.23  E-value=3.8  Score=24.33  Aligned_cols=29  Identities=10%  Similarity=0.116  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          314 VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       314 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..-.-.+|.++...|++++|.++++++.+
T Consensus        23 ~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen   23 FLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33334445555555555555555555543

>smart00028 TPR Tetratricopeptide repeats

Probab=83.59  E-value=2.9  Score=19.71  Aligned_cols=29  Identities=14%  Similarity=0.188  Sum_probs=20.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATF   53 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~   53 (363)
                      .+|..+...+...|+++.|...|+...+.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            35666777777778888888877776653

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.98  E-value=51  Score=31.80  Aligned_cols=192  Identities=11%  Similarity=0.026  Sum_probs=106.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHhcCCh--hHHHHHHHHHHHhhHHHHHHHhHh-
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKG---FMPDVFSYSVLINGYCKNFNV--EEAMNVSREMILNGFKKIFNEMKL-  237 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~-  237 (363)
                      -|..|+..|...|++++|.++|.+..+..   -..-...+..++..+...+..  +-.++.-.+..........+-... 
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            58889999999999999999999987741   011112233355555555554  555555555544332111111111 


Q ss_pred             -----cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC--------ChHHHHHH---
Q 044256          238 -----CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG--------IFEIASEL---  301 (363)
Q Consensus       238 -----~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--------~~~~a~~~---  301 (363)
                           ..+.++     . +-.|......+-+..+++.+....-.++....+.++..|...=        +-+++.+.   
T Consensus       586 ~~~~~~sis~~-----~-Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~v~~~~~~~~kg~e~~E~~~r  659 (877)
T KOG2063|consen  586 DKQEAESISRD-----D-VLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEKVLEQASTDGKGEEAPETTVR  659 (877)
T ss_pred             ChhhhccCCHH-----H-HHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHHHhhccCchhccccchhhhHH
Confidence                 111111     1 2234556677888888888877665667777777777776321        12233333   


Q ss_pred             --HHHhhh--CCCCcc--------HHHHHHHHHHHHccCChhHHHHHHHHHHHc-------------CCCCCHHHHHHHH
Q 044256          302 --FNKLSC--KNLVAD--------VVAYNILIHALGKEGQIKKENYLLLSMEEN-------------GCALDVDTFNTLM  356 (363)
Q Consensus       302 --~~~~~~--~~~~~~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------------g~~p~~~~~~~ll  356 (363)
                        +..+.+  ....|.        ...|....-.+.+.|+.++|+.++-..+..             ...++...|..++
T Consensus       660 ekl~~~l~~s~~Y~p~~~L~~~~~~~l~ee~aill~rl~khe~aL~Iyv~~L~d~~~A~~Yc~~~y~~~~~~~~~y~~lL  739 (877)
T KOG2063|consen  660 EKLLDFLESSDLYDPQLLLERLNGDELYEERAILLGRLGKHEEALHIYVHELDDIDAAESYCLPQYESDKTNKEIYLTLL  739 (877)
T ss_pred             HHHHHHhhhhcccCcchhhhhccchhHHHHHHHHHhhhhhHHHHHHHHHHHhcchhHHHHHHHHhccCCCcccHHHHHHH
Confidence              111111  111221        223333333445888888988887766541             2344777888888


Q ss_pred             HHHhh
Q 044256          357 ISFLQ  361 (363)
Q Consensus       357 ~~~~~  361 (363)
                      +.|..
T Consensus       740 ~~~l~  744 (877)
T KOG2063|consen  740 RIYLN  744 (877)
T ss_pred             HHHhc
Confidence            77654

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.86  E-value=44  Score=31.03  Aligned_cols=330  Identities=13%  Similarity=0.092  Sum_probs=174.2

Q ss_pred             hhHHHHHHHHHHc-CCCC-CchhhHHHHHHHHH-hcCCHHHHHHHHHHHHhcCCCCCcc-----cHHHHHHHHHhcCChh
Q 044256            5 LGALMAFGSFIRR-CYRP-LNDVTFNSLIKGFC-MEGNIRDASQLVKKMATFGCRPNVT-----TCDTLITGLRRTGNMN   76 (363)
Q Consensus         5 ~~A~~~~~~~~~~-~~~p-~~~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~~~~~~~~-----~~~~l~~~~~~~~~~~   76 (363)
                      ..|++.++.+.+. ...| .+..++-.+...+. ...+++.|...+++.....-+++..     .-..++..+.+.+...
T Consensus        38 ~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~  117 (608)
T PF10345_consen   38 ATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA  117 (608)
T ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH
Confidence            4567777777742 2233 13445666777776 6789999999999876543233221     1234566666665555


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCcch-------------hhhccCC
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSL-IDGLCKDRLVDQTKDLFMEMKDKGINANT-------------LLCKKTK  142 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~~  142 (363)
                       |...+++.++.-...+  ..+-...|..+ +..+...+++..|.+.++.+....-....             .....+.
T Consensus       118 -a~~~l~~~I~~~~~~~--~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~  194 (608)
T PF10345_consen  118 -ALKNLDKAIEDSETYG--HSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGS  194 (608)
T ss_pred             -HHHHHHHHHHHHhccC--chhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCC
Confidence             9998888776542100  11112223333 22333347999999999988764321121             3345666


Q ss_pred             hHHHHHHHHHHHHcC---------CCCchhhHHHHHHHHH--hcCCHHHHHHHHHHHHHc---C-CC-------------
Q 044256          143 LVEANRLLELMMQRG---------LNPVIFTYTPLLNGYC--LVGKVNVAIALFDSMARK---G-FM-------------  194 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~---------~~~~~~~~~~li~~~~--~~~~~~~a~~~~~~~~~~---~-~~-------------  194 (363)
                      .+.+.+.+..+....         ..|...+|..+++.++  ..|+++.+...++++.+.   . -.             
T Consensus       195 ~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w~~~~~d~~i~  274 (608)
T PF10345_consen  195 PDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSWPSWDEDGSIP  274 (608)
T ss_pred             chhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccCCCcCCCeeEE
Confidence            777777776663321         2345667777776665  467777776666554321   0 00             


Q ss_pred             -------------CcHhHH---------HHHHHH--HHhcCChhHHHHHHHHHHHhhHHHHHHHhH-hcCCCCCh-----
Q 044256          195 -------------PDVFSY---------SVLING--YCKNFNVEEAMNVSREMILNGFKKIFNEMK-LCNVVPET-----  244 (363)
Q Consensus       195 -------------~~~~~~---------~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-----  244 (363)
                                   |....|         .-++.+  ....+..++|.+.+++..+.     .+... .....+..     
T Consensus       275 l~~~~~~~~~~~~~~~f~wl~~~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~-----i~~~~~~~~~~~~~sl~~~  349 (608)
T PF10345_consen  275 LNIGEGSSNSGGTPLVFSWLPKEELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQ-----IEKLKIKSPSAPSESLSEA  349 (608)
T ss_pred             eecccccccCCCceeEEeecCHHHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHH-----HHHhhccCCCCCCcCHHHH
Confidence                         111111         112222  23455566888888776542     22222 11111110     


Q ss_pred             ---HHHHHHHH---------HHHhcCCHHHHHHHHHHHHhccC--cc------hHHHHHHHHHHHHhcCChHHHHHHHH-
Q 044256          245 ---FTCNIFID---------GLCKNGHVLEVMELFPTLEISNC--EL------FVEIFNSLIRGCCKFGIFEIASELFN-  303 (363)
Q Consensus       245 ---~~~~~ll~---------~~~~~~~~~~a~~~~~~~~~~~~--~~------~~~~~~~li~~~~~~~~~~~a~~~~~-  303 (363)
                         ..|...+.         ..+-.+++..|....+.+....-  ++      .+.++....-.+-..|+.+.|...|. 
T Consensus       350 ~~~~~~~~~l~~~~~~y~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~  429 (608)
T PF10345_consen  350 SERIQWLRYLQCYLLFYQIWCNFIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQK  429 (608)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhh
Confidence               11111111         22346889899999998875421  11      12233333334456799999999998 


Q ss_pred             -------HhhhCCCCccHHHHHHH--HHHHHccC--ChhH--HHHHHHHHHH
Q 044256          304 -------KLSCKNLVADVVAYNIL--IHALGKEG--QIKK--ENYLLLSMEE  342 (363)
Q Consensus       304 -------~~~~~~~~~~~~~~~~l--i~~~~~~g--~~~~--a~~~~~~m~~  342 (363)
                             .....+...+..++..+  +..+...+  ..++  +..+++.+..
T Consensus       430 ~~~~~~~~~~~~~~~~El~ila~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p  481 (608)
T PF10345_consen  430 PRFLLCEAANRKSKFRELYILAALNLAIILQYESSRDDSESELNELLEQIEP  481 (608)
T ss_pred             hHHhhhhhhccCCcchHHHHHHHHHHHHHhHhhcccchhhhHHHHHHHhcCc
Confidence                   44445444444444332  11222222  2223  6666666554

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 [].

>PRK09687 putative lyase; Provisional

Probab=81.77  E-value=27  Score=28.54  Aligned_cols=59  Identities=17%  Similarity=0.195  Sum_probs=25.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCCh----hHHHHHHHHH
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNM----NLTLKLHQEM   85 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~   85 (363)
                      +.......+.++...|. .++...+..+..   .+|...-...+.+++..|+.    .++...+..+
T Consensus        36 d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l   98 (280)
T PRK09687         36 NSLKRISSIRVLQLRGG-QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNL   98 (280)
T ss_pred             CHHHHHHHHHHHHhcCc-chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHH
Confidence            44444455555555543 223333333332   23434444445555555542    2344444444

>PRK09687 putative lyase; Provisional

Probab=81.58  E-value=27  Score=28.49  Aligned_cols=236  Identities=14%  Similarity=0.010  Sum_probs=133.7

Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH----HHHHHHHHHHHHcCC
Q 044256           56 RPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV----DQTKDLFMEMKDKGI  131 (363)
Q Consensus        56 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----~~a~~~~~~~~~~~~  131 (363)
                      .+|.......+.++...|. +.+...+..+..         .+|...-...+.++.+.|+.    .++...+..+...  
T Consensus        34 d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~---------~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--  101 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGG-QDVFRLAIELCS---------SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--  101 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCc-chHHHHHHHHHh---------CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--
Confidence            3555555666666666654 333344444433         34555566666666666653    3455555554322  


Q ss_pred             CcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH-----HHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 044256          132 NANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV-----NVAIALFDSMARKGFMPDVFSYSVLING  206 (363)
Q Consensus       132 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~  206 (363)
                                                 .++..+-...+.++...+..     ..+...+......   ++..+-...+.+
T Consensus       102 ---------------------------D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~a  151 (280)
T PRK09687        102 ---------------------------DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFA  151 (280)
T ss_pred             ---------------------------CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHH
Confidence                                       34444454555555444321     2233333333332   355666667777


Q ss_pred             HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC-CHHHHHHHHHHHHhccCcchHHHHHHH
Q 044256          207 YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG-HVLEVMELFPTLEISNCELFVEIFNSL  285 (363)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l  285 (363)
                      +.+.++ .+++..+-.+...               ++..+-...+.++...+ +...+...+..+..   .++..+-...
T Consensus       152 Lg~~~~-~~ai~~L~~~L~d---------------~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A  212 (280)
T PRK09687        152 LSVIND-EAAIPLLINLLKD---------------PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEA  212 (280)
T ss_pred             HhccCC-HHHHHHHHHHhcC---------------CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHH
Confidence            777766 4555555444432               44444444555555442 23456666666553   3466677778


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          286 IRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      +.++.+.|+. .|...+-...+.+   +  .....+.++...|+. +|+..+..+.+.  .||...-...+.+|.+
T Consensus       213 ~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        213 IIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             HHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            8888888874 4555555555443   2  234677888888885 688888888873  4677777777777654

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=81.57  E-value=2.1  Score=29.82  Aligned_cols=33  Identities=27%  Similarity=0.327  Sum_probs=24.4

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHH
Q 044256           35 CMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL   69 (363)
Q Consensus        35 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~   69 (363)
                      ...|.-.+|..+|.+|+..|-+||.  |+.|+..+
T Consensus       106 R~ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  106 RAYGSKTDAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             hhhccCCcHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            3456667888899999998877764  77777654

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=81.46  E-value=24  Score=28.44  Aligned_cols=86  Identities=10%  Similarity=0.074  Sum_probs=60.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc--CCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHH
Q 044256           30 LIKGFCMEGNIRDASQLVKKMATF--GCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLI  107 (363)
Q Consensus        30 li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  107 (363)
                      =|.+++..+++.+++...-+--+.  .++|  .+...-|-.|++.+.+..+.++-.......      -..+..-|.+++
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPp--kIleLCILLysKv~Ep~amlev~~~WL~~p------~Nq~lp~y~~va  160 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPP--KILELCILLYSKVQEPAAMLEVASAWLQDP------SNQSLPEYGTVA  160 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCH--HHHHHHHHHHHHhcCHHHHHHHHHHHHhCc------ccCCchhhHHHH
Confidence            378888999999988766544332  2333  344555667889999999999998888754      233345587777


Q ss_pred             HHHHh-----cCCHHHHHHHH
Q 044256          108 DGLCK-----DRLVDQTKDLF  123 (363)
Q Consensus       108 ~~~~~-----~~~~~~a~~~~  123 (363)
                      ..|..     .|.+++|.++.
T Consensus       161 ELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  161 ELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHHHhccccHHHHHHHH
Confidence            66654     58899988877

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

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=81.28  E-value=14  Score=25.60  Aligned_cols=40  Identities=8%  Similarity=0.175  Sum_probs=22.3

Q ss_pred             HHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          232 FNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLE  271 (363)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  271 (363)
                      ++.+....+.|++.....-+.+|.+.+++..|.++|+-++
T Consensus        72 lN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   72 LNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3444444555555555555555555556666655555544

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]

Probab=81.24  E-value=28  Score=28.29  Aligned_cols=98  Identities=12%  Similarity=-0.015  Sum_probs=53.4

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCcchHHHH-HHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH--
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----NCELFVEIF-NSLIRGCCKFGIFEIASELFNKLSCKNLVADVV--  315 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--  315 (363)
                      -...+..+...|+..++.+.+.+..++....    |.+.|.... ..|.-.|....-.++-++..+.|.+.|-..+..  
T Consensus       114 ~~ea~~n~aeyY~qi~D~~ng~~~~~~~~~~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDWeRrNR  193 (412)
T COG5187         114 GSEADRNIAEYYCQIMDIQNGFEWMRRLMRDAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDWERRNR  193 (412)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCHHhhhh
Confidence            3456667777888888877777776665433    444443221 112223333334566667777777776544322  


Q ss_pred             --HHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          316 --AYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       316 --~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                        +|..+.  +....++.+|-.++-+...
T Consensus       194 yK~Y~Gi~--~m~~RnFkeAa~Ll~d~l~  220 (412)
T COG5187         194 YKVYKGIF--KMMRRNFKEAAILLSDILP  220 (412)
T ss_pred             HHHHHHHH--HHHHHhhHHHHHHHHHHhc
Confidence              233222  2234556777666666554

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=80.37  E-value=27  Score=27.55  Aligned_cols=119  Identities=13%  Similarity=0.041  Sum_probs=70.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .+++.|+..+.+....  .|..+.-|..-+.++.+..+++.+..=-.+.++.  .||.. ....+..+......++.|+.
T Consensus        24 k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql--~~N~vk~h~flg~~~l~s~~~~eaI~   99 (284)
T KOG4642|consen   24 KRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL--DPNLVKAHYFLGQWLLQSKGYDEAIK   99 (284)
T ss_pred             hhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc--ChHHHHHHHHHHHHHHhhccccHHHH
Confidence            3567777766666654  6734455677777777778877777666665554  45543 33445556667777888888


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  126 (363)
                      .+.+.........  ..+-..++..|..+--+.-...+..++.++.
T Consensus       100 ~Lqra~sl~r~~~--~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~~  143 (284)
T KOG4642|consen  100 VLQRAYSLLREQP--FTFGDDIPKALRDAKKKRWEVSEEKRIRQEL  143 (284)
T ss_pred             HHHHHHHHHhcCC--CCCcchHHHHHHHHHhCccchhHHHHHHHHh
Confidence            8777744332111  3344556666666554444445555544443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.18  E-value=29  Score=27.86  Aligned_cols=164  Identities=10%  Similarity=0.043  Sum_probs=90.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc---CC--CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARK---GF--MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                      ...++....+.|++++....|.++...   .+  .-+..+.++++.......+.+-....++.-+.     .++..+...
T Consensus        68 LKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~-----ALkdAKNeR  142 (440)
T KOG1464|consen   68 LKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLD-----ALKDAKNER  142 (440)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH-----HHHhhhcce
Confidence            345677788888888888888777532   11  12445667777765555554444444433221     111111111


Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----------cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          240 VVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----------ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       240 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      .  --.|-.-+...|...+.+.+..++++++...--           ..-..+|..=|..|....+-.....++++....
T Consensus       143 L--WFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhi  220 (440)
T KOG1464|consen  143 L--WFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHI  220 (440)
T ss_pred             e--eeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHh
Confidence            1  111233455667777777777777777654310           111346666777777777777777777776542


Q ss_pred             C-CCccHHHHHHHHHHH-----HccCChhHHHHH
Q 044256          309 N-LVADVVAYNILIHAL-----GKEGQIKKENYL  336 (363)
Q Consensus       309 ~-~~~~~~~~~~li~~~-----~~~g~~~~a~~~  336 (363)
                      . .-|.+... .+|+-|     .+.|++++|-.-
T Consensus       221 KSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTD  253 (440)
T KOG1464|consen  221 KSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTD  253 (440)
T ss_pred             hccCCchHHH-hHHHHcCCccccccchHHHHHhH
Confidence            1 23444433 344444     356777776543

---

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	363
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.5 bits (163), Expect = 2e-12
 Identities = 17/138 (12%), Positives = 47/138 (34%), Gaps = 5/138 (3%)

Query: 230 KIFNEMKLCNVVPETFTCNIFIDGLCKNGHV---LEVMELFPTLEISNCELFVEIFNSLI 286
               +     +  +      F         +     ++ +          L ++++N+++
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVM 172

Query: 287 RGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE-NYLLLSMEENGC 345
            G  + G F+    +   +    L  D+++Y   +  +G++ Q        L  M + G 
Sbjct: 173 LGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGL 232

Query: 346 ALDVDTFNTLMISFLQKE 363
            L    F  +++S   + 
Sbjct: 233 KLQ-ALFTAVLLSEEDRA 249

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.1 bits (154), Expect = 3e-11
 Identities = 27/236 (11%), Positives = 69/236 (29%), Gaps = 21/236 (8%)

Query: 131 INANTLLCKKTKLVE-ANRLLEL---MMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFD 186
           + A    C  T  +  A+ LL +     Q+     +  Y  ++ G+   G     + +  
Sbjct: 130 LLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLF 189

Query: 187 SMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFT 246
            +   G  PD+ SY+  +    +       +           ++   +M    +  +   
Sbjct: 190 MVKDAGLTPDLLSYAAALQCMGRQDQDAGTI-----------ERCLEQMSQEGLKLQALF 238

Query: 247 CNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS 306
             + +    +   +  V ++ PT  +          + L+R        +     + KL 
Sbjct: 239 TAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA----KDGRVSYPKLH 294

Query: 307 CKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK 362
                   +    L   +    ++   +    ++          T  TL   + + 
Sbjct: 295 LPLKTLQCLFEKQL--HMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKA 348

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 48.7 bits (114), Expect = 2e-06
 Identities = 12/117 (10%), Positives = 38/117 (32%), Gaps = 5/117 (4%)

Query: 20  RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL 79
           + L    +N+++ G+  +G  ++   ++  +   G  P++ +    +  + R      T+
Sbjct: 161 KLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTI 220

Query: 80  KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL 136
              +  +  M   G   K        L+    +  ++     +             +
Sbjct: 221 ---ERCLEQMSQEG--LKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPV 272

>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 = 51.8 bits (123), Expect = 2e-07
 Identities = 56/414 (13%), Positives = 121/414 (29%), Gaps = 130/414 (31%)

Query: 15  IRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMAT-------FGCRPNVTTCDTLIT 67
            +  Y+ +  V  ++ +  F    + +D   + K + +          +  V+    L  
Sbjct: 14  HQYQYKDILSVFEDAFVDNF----DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69

Query: 68  GLRRTGNMNLTLKLHQEMVNGMGDF-GGIYKPNVFCYGSLIDGL---CKDRLVDQTKDLF 123
            L                   +  F   + + N   Y  L+  +    +   +     ++
Sbjct: 70  TLLSKQE------------EMVQKFVEEVLRIN---YKFLMSPIKTEQRQPSMMT--RMY 112

Query: 124 MEMKDKGINANTLLCK--------KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLV 175
           +E +D+  N N +  K          KL +A  LLEL   + +         L++G    
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA--LLELRPAKNV---------LIDGVLGS 161

Query: 176 GKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAM-------NVSR----EMI 224
           GK                       + +    C ++ V+  M       N+      E +
Sbjct: 162 GK-----------------------TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198

Query: 225 LNGFKKIFNEMKLCNVVPETFTCNIFIDG----------LCKNGH-----VL------EV 263
           L   +K+  ++          + NI +            L    +     VL      + 
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258

Query: 264 MELFPTLEISNCELFV-----EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYN 318
              F    + +C++ +     ++ + L          +  S        K+L+   +  +
Sbjct: 259 WNAF---NL-SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL--D 312

Query: 319 ILIHALGKEGQIKKENYLLLSM-----EENGCALD------VDTFNTLMISFLQ 361
                L +E  +   N   LS+      +     D       D   T++ S L 
Sbjct: 313 CRPQDLPRE--VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

>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 = 49.5 bits (117), Expect = 1e-06
 Identities = 50/376 (13%), Positives = 86/376 (22%), Gaps = 143/376 (38%)

Query: 16  RRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNM 75
             C   L +V        F                    C+  +TT    +T        
Sbjct: 244 ENCLLVLLNVQNAKAWNAF-----------------NLSCKILLTTRFKQVT-------- 278

Query: 76  NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT 135
                          DF                 L      D+ K L             
Sbjct: 279 ---------------DFLSAATTTHISLDHHSMTLTP----DEVKSLL---------LKY 310

Query: 136 LLCKKTKL-VEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM 194
           L C+   L  E             NP                     +++     R    
Sbjct: 311 LDCRPQDLPREV---------LTTNP-------------------RRLSIIAESIRD--G 340

Query: 195 PDVFSYSVLINGYCKNFNVEEAMNVSREMILNG---------FKK--IFNEMKLCNV-VP 242
              +          K+ N ++ +    E  LN          F +  +F      +  +P
Sbjct: 341 LATWDNW-------KHVNCDK-LTTIIESSLNVLEPAEYRKMFDRLSVFPP----SAHIP 388

Query: 243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFN--SLIRGCCKFGIFEIASE 300
                            +L +  ++  +  S+  + V   +  SL+    K     I S 
Sbjct: 389 T---------------ILLSL--IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 301 LFN-KLSCKNLVAD----VVAYNIL-IHALGKEGQIKKENYLL------LSMEENGCALD 348
               K+  +N  A     V  YNI              + Y        L   E+     
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH--PER 489

Query: 349 VDTFNTLMI--SFLQK 362
           +  F  + +   FL++
Sbjct: 490 MTLFRMVFLDFRFLEQ 505

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	363
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.76
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.74
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.73
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.72
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.7
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.68
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.67
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.65
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.65
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.65
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.64
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.63
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.63
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.61
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.6
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.58
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.56
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.52
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.49
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.48
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.48
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.45
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.42
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.41
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.33
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.32
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.29
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.28
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.27
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.25
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.23
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.22
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.2
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.18
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.18
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.17
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.17
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.17
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.16
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.15
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.13
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.12
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.09
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.08
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.06
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.06
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.02
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.98
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.97
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.97
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.96
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.95
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.94
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.92
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.9
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.9
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.9
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.89
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.89
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.88
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.88
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.87
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.87
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.87
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.86
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.85
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.84
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.84
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.84
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.84
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.83
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.83
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.79
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.79
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.78
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.78
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.77
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.72
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.72
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.71
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.69
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.69
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.68
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.67
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.64
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.64
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.6
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.59
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.59
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.56
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.54
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.54
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.53
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.52
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.52
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.49
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.42
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.41
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.41
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.39
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.39
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.37
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.37
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.35
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.31
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.31
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.29
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.25
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.24
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.2
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.18
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.16
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.11
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.05
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.04
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.02
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.85
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.61
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.6
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.58
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.56
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.5
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.47
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.37
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.28
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.24
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.93
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.88
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.85
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.81
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.8
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.76
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.74
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.74
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.73
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.51
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.5
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.49
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.43
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.78
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.34
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.95
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.77
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.74
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.57
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.45
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.16
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.71
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.5
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.89
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.42
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.23
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.52
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.48
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.11
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.0
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.9
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.71
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.69
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.49
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.17
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.97
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	89.49
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.18
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.09
2p58_C	116	Putative type III secretion protein YSCG; type III	86.05
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	84.58
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.5
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.33
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.26
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	83.78
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.59

>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=4.4e-35  Score=253.01  Aligned_cols=202  Identities=15%  Similarity=0.155  Sum_probs=177.4

Q ss_pred             HHHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC---------hhHHH
Q 044256          148 RLLELMMQRGLNPV-IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFN---------VEEAM  217 (363)
Q Consensus       148 ~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~  217 (363)
                      .+.+.+.+.+..+. ...++.+|++|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         .++|.
T Consensus        11 ~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~   90 (501)
T 4g26_A           11 NLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGF   90 (501)
T ss_dssp             -------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHH
T ss_pred             HHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHH
Confidence            33344444444333 346888999999999999999999999999999999999999999998765         45564


Q ss_pred             HHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHH
Q 044256          218 NVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEI  297 (363)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  297 (363)
                                  .+|++|...|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus        91 ------------~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~  158 (501)
T 4g26_A           91 ------------DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADK  158 (501)
T ss_dssp             ------------HHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ------------HHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHH
Confidence                        55666677789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          298 ASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       298 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      |.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       159 A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          159 AYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999999999999998875

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.4e-32  Score=244.01  Aligned_cols=352  Identities=10%  Similarity=-0.035  Sum_probs=273.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..+|+.+...  .| +..++..++.+|.+.|++++|..+|+++...  +++..+++.++.+|.+.|++++|.+
T Consensus        97 ~g~~~~A~~~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  171 (597)
T 2xpi_A           97 QQQYKCAAFVGEKVLDI--TG-NPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALN  171 (597)
T ss_dssp             TTCHHHHHHHHHHHHHH--HC-CHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccCchHHHHHHHHHHhh--CC-CchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHH
Confidence            47899999999999965  77 8889999999999999999999999998654  6888999999999999999999999


Q ss_pred             HHHHHHhcc---------CCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----------------
Q 044256           81 LHQEMVNGM---------GDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----------------  135 (363)
Q Consensus        81 ~~~~~~~~~---------~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------  135 (363)
                      +|+++....         .......+++..+|+.++.+|.+.|++++|.++|+++.+.++....                
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  251 (597)
T 2xpi_A          172 LLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEE  251 (597)
T ss_dssp             HHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHH
T ss_pred             HHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhH
Confidence            999532211         0001113456899999999999999999999999999886543211                


Q ss_pred             -----------------------------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHH
Q 044256          136 -----------------------------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFD  186 (363)
Q Consensus       136 -----------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  186 (363)
                                                   .+.+.|++++|.++|+.+.+.  +++..+++.++..|.+.|++++|..+|+
T Consensus       252 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~  329 (597)
T 2xpi_A          252 WDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITT  329 (597)
T ss_dssp             HHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence                                         233567777777777777655  4677777788888888888888888887


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH----------------------HHHHHHhHhcCCCCCh
Q 044256          187 SMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF----------------------KKIFNEMKLCNVVPET  244 (363)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~  244 (363)
                      ++.+.+ +.+..++..++.++.+.|++++|..+++++.....                      ..+++.+.+.. +.+.
T Consensus       330 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  407 (597)
T 2xpi_A          330 KILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFG  407 (597)
T ss_dssp             HHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCH
Confidence            777654 22455566666666666666666666665543221                      23333333321 2356


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|
T Consensus       408 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  485 (597)
T 2xpi_A          408 PAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVA  485 (597)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            789999999999999999999999998775 6678899999999999999999999999998764 45788999999999


Q ss_pred             HccCChhHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHhhcC
Q 044256          325 GKEGQIKKENYLLLSMEEN----GCALD--VDTFNTLMISFLQKE  363 (363)
Q Consensus       325 ~~~g~~~~a~~~~~~m~~~----g~~p~--~~~~~~ll~~~~~~~  363 (363)
                      .+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|
T Consensus       486 ~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  530 (597)
T 2xpi_A          486 FNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLK  530 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhc
Confidence            9999999999999999876    66888  789999999888765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.8e-32  Score=243.05  Aligned_cols=343  Identities=10%  Similarity=-0.048  Sum_probs=251.3

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc---------------CCCCCcccHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF---------------GCRPNVTTCDTL   65 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------~~~~~~~~~~~l   65 (363)
                      .|++++|..+|+.+...  .+ ++.+++.++.+|.+.|++++|+++|+++...               +.+++..+|+.+
T Consensus       130 ~g~~~~A~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  206 (597)
T 2xpi_A          130 TGDYARAKCLLTKEDLY--NR-SSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLR  206 (597)
T ss_dssp             TTCHHHHHHHHHHTCGG--GT-CHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcc--cc-chhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHH
Confidence            36788888888887653  44 7888888888888888888888888853211               122346788888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCC----------------------------------------------------
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFG----------------------------------------------------   93 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------------------------------------------   93 (363)
                      +.+|.+.|++++|.+.|+++.+.+....                                                    
T Consensus       207 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g  286 (597)
T 2xpi_A          207 GQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHED  286 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcc
Confidence            8888888888888888888876542200                                                    


Q ss_pred             ----------C--ccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHH
Q 044256           94 ----------G--IYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        94 ----------~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~  154 (363)
                                .  ..+++..+|+.++.+|.+.|++++|..+|+++.+.++....       .+...|++++|..+++.+.
T Consensus       287 ~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  366 (597)
T 2xpi_A          287 ELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLV  366 (597)
T ss_dssp             HHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence                      0  01377888999999999999999999999999876543222       5678888889999888888


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHH
Q 044256          155 QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNE  234 (363)
Q Consensus       155 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  234 (363)
                      +.. +.+..+++.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|..+|+++...+       
T Consensus       367 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------  437 (597)
T 2xpi_A          367 DRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-------  437 (597)
T ss_dssp             HHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-------
T ss_pred             hhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------
Confidence            654 5567788888899999999999999998887753 3357788888889999999999988888876554       


Q ss_pred             hHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CC
Q 044256          235 MKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NL  310 (363)
Q Consensus       235 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~  310 (363)
                            +.+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +.
T Consensus       438 ------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  510 (597)
T 2xpi_A          438 ------QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQS  510 (597)
T ss_dssp             ------TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             ------ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcccc
Confidence                  2356667777777777777777777777776654 456667777777777777777777777776654    44


Q ss_pred             Ccc--HHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhcC
Q 044256          311 VAD--VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       311 ~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  363 (363)
                      .|+  ..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|.+.|
T Consensus       511 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g  564 (597)
T 2xpi_A          511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKK  564 (597)
T ss_dssp             CSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhC
Confidence            555  6677777777777777777777777776643 335666777766666543

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.5e-33  Score=243.51  Aligned_cols=207  Identities=12%  Similarity=0.148  Sum_probs=175.0

Q ss_pred             hHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCC---------hh
Q 044256            6 GALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGN---------MN   76 (363)
Q Consensus         6 ~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~---------~~   76 (363)
                      .+..+++.+.+.+..+.....++.+|++|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         .+
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            345566677777766623446899999999999999999999999999999999999999999987764         57


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHc
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      .|.++|++|.+.|      +.||..+|++||.+|++.|++++|.++|++|.+.                           
T Consensus        88 ~A~~lf~~M~~~G------~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~---------------------------  134 (501)
T 4g26_A           88 RGFDIFKQMIVDK------VVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF---------------------------  134 (501)
T ss_dssp             HHHHHHHHHHHTT------CCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT---------------------------
T ss_pred             HHHHHHHHHHHhC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---------------------------
Confidence            8999999999999      8999999999999999999999999999999864                           


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          157 GLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      |+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|+.++|.+++++            |.
T Consensus       135 g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~------------Mr  202 (501)
T 4g26_A          135 GIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQR------------LR  202 (501)
T ss_dssp             TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH------------HH
T ss_pred             CCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHH------------HH
Confidence            557889999999999999999999999999999999999999999999999999999999755554            55


Q ss_pred             hcCCCCChHHHHHHHHHHHhc
Q 044256          237 LCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      +.+..|+..||+.++..|+..
T Consensus       203 ~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          203 DLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhCCCcCHHHHHHHHHHHhcC
Confidence            567899999999999988764

>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=1.4e-28  Score=208.88  Aligned_cols=341  Identities=12%  Similarity=0.023  Sum_probs=215.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|.+.++.+.+.  .|.++..+..+...+...|++++|...++...+.. +.+..+|..+..++.+.|++++|...
T Consensus        13 g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   89 (388)
T 1w3b_A           13 GDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEH   89 (388)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            6777777777777765  56566667777777777777777777777766653 44556677777777777777777777


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMM  154 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~  154 (363)
                      |+++.+..       +.+..+|..+..++.+.|++++|.+.|+++.+..+....       .+...|++++|...++++.
T Consensus        90 ~~~al~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           90 YRHALRLK-------PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHC-------TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHcC-------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            77777643       334556777777777777777777777777665433222       4455677777777777766


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhH------
Q 044256          155 QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGF------  228 (363)
Q Consensus       155 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------  228 (363)
                      +.. +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+++.....+      
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  240 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHH
Confidence            653 3345566666666777777777777776666542 22344555555555555666666555555443321      


Q ss_pred             ----------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc
Q 044256          229 ----------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF  292 (363)
Q Consensus       229 ----------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  292 (363)
                                      ...++.+.... +.+..++..+..++.+.|++++|...|+++.+.. +.+..++..+...+...
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHc
Confidence                            11111111111 2234566677777777777777777777776654 55666777777777777


Q ss_pred             CChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHH
Q 044256          293 GIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALD-VDTFNTLMISF  359 (363)
Q Consensus       293 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~  359 (363)
                      |++++|...++++.+.. +.+..++..+..++.+.|++++|...|+++.+  +.|+ ...+..+-..+
T Consensus       319 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~~~  383 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTL  383 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhHHHHH
Confidence            77777777777776653 44566777777777777777777777777776  3443 44444444443

>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=8.3e-28  Score=204.06  Aligned_cols=299  Identities=12%  Similarity=0.019  Sum_probs=188.7

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLH   82 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   82 (363)
                      ++++|+..|+.+.+.  .|.+..+|..+..++.+.|++++|...|+++.+.. +.+...+..+...+...|++++|.+.|
T Consensus        82 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (388)
T 1w3b_A           82 QLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            344444444444443  33333444444444444444444444444444331 111223333444444444555555555


Q ss_pred             HHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHH
Q 044256           83 QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~  155 (363)
                      +++.+..       +.+..+|..+...+.+.|++++|...|+++.+..+....       .+...|++++|...+.+...
T Consensus       159 ~~al~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  231 (388)
T 1w3b_A          159 LKAIETQ-------PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHC-------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHhC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5444432       233445555555555555555555555555554322111       34456666666666666655


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                      .. +.+..++..+...+.+.|++++|...|+++.+.+ +.+..+|..+...+.+.|++++|...++++.+..        
T Consensus       232 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------  301 (388)
T 1w3b_A          232 LS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--------  301 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--------
T ss_pred             hC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--------
Confidence            43 2345667777777777778888887777777653 2245667777777777788888877777766543        


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVV  315 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  315 (363)
                           +.+..++..+...+...|++++|...++++.+.. +.+..++..+...|.+.|++++|...|+++.+.. +.+..
T Consensus       302 -----p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~  374 (388)
T 1w3b_A          302 -----PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFAD  374 (388)
T ss_dssp             -----TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHH
T ss_pred             -----cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHH
Confidence                 4577889999999999999999999999998764 6678899999999999999999999999999864 44677


Q ss_pred             HHHHHHHHHHccC
Q 044256          316 AYNILIHALGKEG  328 (363)
Q Consensus       316 ~~~~li~~~~~~g  328 (363)
                      .|..+...+...|
T Consensus       375 a~~~lg~~~~~~~  387 (388)
T 1w3b_A          375 AYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHhHHHHHHHcc
Confidence            8888777776655

>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=99.96  E-value=3.4e-25  Score=191.71  Aligned_cols=318  Identities=11%  Similarity=-0.013  Sum_probs=260.8

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQE   84 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   84 (363)
                      ..+...|..+...  .|.++..|..+...+.+.|++++|+.+|+++.+.. +.+..+|..+..++...|++++|...|++
T Consensus         9 ~~~~~~~~~~~~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (450)
T 2y4t_A            9 SGVDLGTENLYFQ--SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTK   85 (450)
T ss_dssp             ----------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccccccccccc--cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3445556666655  67688999999999999999999999999998864 45678899999999999999999999999


Q ss_pred             HHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc---h-------------------hhhccCC
Q 044256           85 MVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINAN---T-------------------LLCKKTK  142 (363)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~-------------------~~~~~~~  142 (363)
                      +.+..       +.+..++..+..++.+.|++++|...|+++.+..+...   .                   .+...|+
T Consensus        86 al~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A           86 VIQLK-------MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHHC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHhcC-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            99865       55688999999999999999999999999998655433   2                   2778999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      +++|...++.+.+.. +.+..++..+..+|.+.|++++|..+|+.+.+.. +.+..++..+...|...|++++|...+++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999998874 4567889999999999999999999999998763 44788999999999999999999999988


Q ss_pred             HHHhhHHHHHHHhHhcCCCCC-hHHHHHH------------HHHHHhcCCHHHHHHHHHHHHhccCcch----HHHHHHH
Q 044256          223 MILNGFKKIFNEMKLCNVVPE-TFTCNIF------------IDGLCKNGHVLEVMELFPTLEISNCELF----VEIFNSL  285 (363)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l  285 (363)
                      +....              |+ ...+..+            ...+...|++++|...|+++.... +.+    ...+..+
T Consensus       237 ~~~~~--------------p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~l  301 (450)
T 2y4t_A          237 CLKLD--------------QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSIAEYTVRSKERI  301 (450)
T ss_dssp             HHHHC--------------TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHH
T ss_pred             HHHhC--------------CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchHHHHHHHHHH
Confidence            87653              43 3334443            788999999999999999998764 222    4578889


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHH
Q 044256          286 IRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTF  352 (363)
Q Consensus       286 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  352 (363)
                      ..++.+.|++++|...++++.... +.+...|..+..+|...|++++|...|+++.+  +.|+....
T Consensus       302 ~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~  365 (450)
T 2y4t_A          302 CHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQI  365 (450)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHH
Confidence            999999999999999999998763 45789999999999999999999999999998  56664443

>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=99.95  E-value=2.3e-24  Score=186.49  Aligned_cols=312  Identities=9%  Similarity=0.020  Sum_probs=257.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+.+|+.+.+.  .|.++.+|..+..++...|++++|+..|+++.+.+ +.+..++..+..++.+.|++++|..
T Consensus        39 ~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  115 (450)
T 2y4t_A           39 AGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAED  115 (450)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            48899999999999986  66689999999999999999999999999999875 4467788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCch---hhHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhh
Q 044256           81 LHQEMVNGMGDFGGIYKPNV---FCYGSL------------IDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLC  138 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~  138 (363)
                      .|+.+.+..       +.+.   ..+..+            ...+.+.|++++|...|+++.+.......       .+.
T Consensus       116 ~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  188 (450)
T 2y4t_A          116 DFKKVLKSN-------PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFI  188 (450)
T ss_dssp             HHHHHHTSC-------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-------CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            999999854       3344   566655            44488999999999999999886543222       678


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHH------------HHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVL------------ING  206 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~  206 (363)
                      ..|++++|...++.+.+.. +.+..++..+...|...|++++|...|+.+.... +.+...+..+            ...
T Consensus       189 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~  266 (450)
T 2y4t_A          189 KEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEE  266 (450)
T ss_dssp             HTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999998764 4567899999999999999999999999998763 2234444444            788


Q ss_pred             HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC-----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHH
Q 044256          207 YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE-----TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEI  281 (363)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  281 (363)
                      +...|++++|...++++....              |+     ...+..+..++.+.|++++|+..++++.... +.+..+
T Consensus       267 ~~~~g~~~~A~~~~~~~l~~~--------------p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~  331 (450)
T 2y4t_A          267 LIRDGRYTDATSKYESVMKTE--------------PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNA  331 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC--------------CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC--------------CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHH
Confidence            999999999999998887643              44     3478888999999999999999999998775 667899


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH------------HHHccC-----ChhHHHHHHHHH
Q 044256          282 FNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH------------ALGKEG-----QIKKENYLLLSM  340 (363)
Q Consensus       282 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~------------~~~~~g-----~~~~a~~~~~~m  340 (363)
                      |..+..+|...|++++|...++++.+.. +-+...+..+..            .|...|     +.+++.+.|+++
T Consensus       332 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~  406 (450)
T 2y4t_A          332 LKDRAEAYLIEEMYDEAIQDYETAQEHN-ENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKL  406 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHH
Confidence            9999999999999999999999999863 335666666653            244444     567788888874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=1.9e-23  Score=183.78  Aligned_cols=332  Identities=10%  Similarity=-0.045  Sum_probs=221.8

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+.+.  .| ++.+|..+..++.+.|++++|+..|+++.+.+ +.+..+|..+..++...|++++|..
T Consensus        19 ~g~~~~A~~~~~~al~~--~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   94 (514)
T 2gw1_A           19 NKKYDDAIKYYNWALEL--KE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMF   94 (514)
T ss_dssp             TSCHHHHHHHHHHHHHH--CC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHhc--Cc-cHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            48999999999999997  58 89999999999999999999999999999875 4456789999999999999999999


Q ss_pred             HHHHHHhccCCCCCc-----------------------------------------------------------------
Q 044256           81 LHQEMVNGMGDFGGI-----------------------------------------------------------------   95 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~-----------------------------------------------------------------   95 (363)
                      .|+.+....+.....                                                                 
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (514)
T 2gw1_A           95 DLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPE  174 (514)
T ss_dssp             HHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCC
T ss_pred             HHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHH
Confidence            999998765210000                                                                 


Q ss_pred             -------cCCchhhHHHHHHHHHh---cCCHHHHHHHHHHHHH-----cCCCc-------ch---------hhhccCChH
Q 044256           96 -------YKPNVFCYGSLIDGLCK---DRLVDQTKDLFMEMKD-----KGINA-------NT---------LLCKKTKLV  144 (363)
Q Consensus        96 -------~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~-----~~~~~-------~~---------~~~~~~~~~  144 (363)
                             .+.+...+......+..   .|++++|...|+++.+     ....|       ..         .+...|+++
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (514)
T 2gw1_A          175 LTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPL  254 (514)
T ss_dssp             CCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHH
Confidence                   00112233333333333   7889999999998887     31121       11         566788899


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          145 EANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                      +|...++.+.+....  ..++..+...+...|++++|...++.+.... +.+...+..+...+...|++++|...++++.
T Consensus       255 ~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  331 (514)
T 2gw1_A          255 GAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAK  331 (514)
T ss_dssp             HHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999998888876533  6777778888888888888888888877653 3356677777788888888888888887776


Q ss_pred             HhhH----------------------HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch----
Q 044256          225 LNGF----------------------KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF----  278 (363)
Q Consensus       225 ~~~~----------------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----  278 (363)
                      ....                      ...++...... +.+...+..+...+...|++++|...++++.... +.+    
T Consensus       332 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~  409 (514)
T 2gw1_A          332 ELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE-NKLDGIY  409 (514)
T ss_dssp             HTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HTSSSCS
T ss_pred             HhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh-hccchHH
Confidence            5431                      11222222211 1233455555555555566666666555554432 111    


Q ss_pred             --HHHHHHHHHHHHh---cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          279 --VEIFNSLIRGCCK---FGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       279 --~~~~~~li~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                        ..++..+...+..   .|++++|...++++.... +.+..++..+..++.+.|++++|...|++..+
T Consensus       410 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  477 (514)
T 2gw1_A          410 VGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESAD  477 (514)
T ss_dssp             SCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence              2255555555555   566666666666555542 33455555555556666666666666666555

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=9e-22  Score=164.86  Aligned_cols=301  Identities=10%  Similarity=-0.019  Sum_probs=241.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+.+.  .|.++.+|..+...+...|++++|+..|+++.+.. +.+...+..+..++...|++++|..
T Consensus        16 ~g~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~   92 (359)
T 3ieg_A           16 AGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAED   92 (359)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHH
Confidence            48999999999999987  67689999999999999999999999999999874 3366788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccC---CchhhHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHH
Q 044256           81 LHQEMVNGMGDFGGIYK---PNVFCYGSL------------IDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVE  145 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~---~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (363)
                      .|+.+.+..       +   .+...+..+            ...+...|++++|...++++.+.                
T Consensus        93 ~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~----------------  149 (359)
T 3ieg_A           93 DFKKVLKSN-------PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV----------------  149 (359)
T ss_dssp             HHHHHHTSC-------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHhcC-------CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh----------------
Confidence            999999853       3   345555555            35566666666666666666543                


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                                 . +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...+++...
T Consensus       150 -----------~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          150 -----------C-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             -----------C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----------C-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                       2 3456788889999999999999999999998873 44778889999999999999999999988876


Q ss_pred             hhHHHHHHHhHhcCCCCC-hHHHH------------HHHHHHHhcCCHHHHHHHHHHHHhccCcchH----HHHHHHHHH
Q 044256          226 NGFKKIFNEMKLCNVVPE-TFTCN------------IFIDGLCKNGHVLEVMELFPTLEISNCELFV----EIFNSLIRG  288 (363)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~-~~~~~------------~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~  288 (363)
                      ..              |+ ...+.            .+...+...|++++|...++++.+.. +.+.    ..+..+..+
T Consensus       217 ~~--------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~  281 (359)
T 3ieg_A          217 LD--------------QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHC  281 (359)
T ss_dssp             HC--------------TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHH
T ss_pred             hC--------------ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHH
Confidence            54              33 22222            23666889999999999999998764 3333    335567889


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHH
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV-DTFNTLMIS  358 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~  358 (363)
                      +...|++++|...+++..+.. +.+...|..+..++...|++++|...|++..+  +.|+. ..+..+..+
T Consensus       282 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          282 FSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLEKA  349 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHHHH
Confidence            999999999999999999864 45788999999999999999999999999998  45664 444444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=2.2e-22  Score=177.07  Aligned_cols=302  Identities=8%  Similarity=-0.101  Sum_probs=204.2

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----------------------
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----------------------   59 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------------------   59 (363)
                      |++++|+..|+.+.+.  .|.+..+|..+..++.+.|++++|...|+++.+.+ +++.                      
T Consensus        53 g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (514)
T 2gw1_A           53 GDLKKVVEMSTKALEL--KPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEK  129 (514)
T ss_dssp             TCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHhcc--ChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHH
Confidence            7899999999999987  67688999999999999999999999999998764 2221                      


Q ss_pred             ---------------------------------------------------------ccHHHHHHHHHh---cCChhHHH
Q 044256           60 ---------------------------------------------------------TTCDTLITGLRR---TGNMNLTL   79 (363)
Q Consensus        60 ---------------------------------------------------------~~~~~l~~~~~~---~~~~~~a~   79 (363)
                                                                               ..+..+...+..   .|++++|.
T Consensus       130 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~  209 (514)
T 2gw1_A          130 FGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKAD  209 (514)
T ss_dssp             ---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHH
T ss_pred             HHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHH
Confidence                                                                     122222222333   79999999


Q ss_pred             HHHHHHHh-----ccCCCCC--ccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHH
Q 044256           80 KLHQEMVN-----GMGDFGG--IYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEA  146 (363)
Q Consensus        80 ~~~~~~~~-----~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a  146 (363)
                      ..|+++.+     .....+.  ..+.+..++..+...+...|++++|...++++.+....+..      .+...|++++|
T Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A  289 (514)
T 2gw1_A          210 ESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEY  289 (514)
T ss_dssp             HHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTG
T ss_pred             HHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHH
Confidence            99999987     3100000  00334677888899999999999999999999887655211      34455556666


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHh
Q 044256          147 NRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILN  226 (363)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (363)
                      ...++.+.... +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++...
T Consensus       290 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          290 YNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             GGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            66665555443 2234455555555555555555555555555442 113344444555555555555555555554432


Q ss_pred             hH----------------------HHHHHHhHhcCC-CCC----hHHHHHHHHHHHh---cCCHHHHHHHHHHHHhccCc
Q 044256          227 GF----------------------KKIFNEMKLCNV-VPE----TFTCNIFIDGLCK---NGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       227 ~~----------------------~~~~~~~~~~~~-~~~----~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~  276 (363)
                      ..                      ...++.+..... .++    ...+..+..++..   .|++++|...++++.... +
T Consensus       368 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~  446 (514)
T 2gw1_A          368 FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-P  446 (514)
T ss_dssp             STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-T
T ss_pred             cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-c
Confidence            21                      112222211111 112    3388889999999   999999999999998875 6


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .+..++..+...|...|++++|...|+++.+..
T Consensus       447 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          447 RSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            678889999999999999999999999999874

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.92  E-value=2.5e-21  Score=171.21  Aligned_cols=323  Identities=13%  Similarity=0.021  Sum_probs=255.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+.+.  .|.++.+|..+..++.+.|++++|++.|+++.+.+ +.+..++..+..++...|++++|..
T Consensus        38 ~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~  114 (537)
T 3fp2_A           38 AKNFNEAIKYYQYAIEL--DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMF  114 (537)
T ss_dssp             TTCCC-CHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            47889999999999887  67688899999999999999999999999988875 4456778888888888888888887


Q ss_pred             HHHHHHhccCCCCC------------------------------------------------------------------
Q 044256           81 LHQEMVNGMGDFGG------------------------------------------------------------------   94 (363)
Q Consensus        81 ~~~~~~~~~~~~~~------------------------------------------------------------------   94 (363)
                      .|+.+ ...+....                                                                  
T Consensus       115 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (537)
T 3fp2_A          115 DLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAY  193 (537)
T ss_dssp             HHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSH
T ss_pred             HHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHH
Confidence            77432 10000000                                                                  


Q ss_pred             ------------------------------------ccCCc--------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           95 ------------------------------------IYKPN--------VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        95 ------------------------------------~~~~~--------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                                                          ...|+        ..++..+...+...|++++|...+++..+..
T Consensus       194 ~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~  273 (537)
T 3fp2_A          194 ALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH  273 (537)
T ss_dssp             HHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Confidence                                                01121        2245666677888999999999999999876


Q ss_pred             CCcch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHH
Q 044256          131 INANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLI  204 (363)
Q Consensus       131 ~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  204 (363)
                      +.+..      .+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+.
T Consensus       274 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la  351 (537)
T 3fp2_A          274 PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLA  351 (537)
T ss_dssp             CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHH
T ss_pred             CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            65332      6678999999999999998875 4467789999999999999999999999998874 33567888899


Q ss_pred             HHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----cchH
Q 044256          205 NGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----ELFV  279 (363)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~  279 (363)
                      ..+...|++++|...++++....             +.+...+..+...+...|++++|...++++.+...     ....
T Consensus       352 ~~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  418 (537)
T 3fp2_A          352 CLLYKQGKFTESEAFFNETKLKF-------------PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGI  418 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-------------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-------------CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHH
Confidence            99999999999999998887654             34567888999999999999999999999876531     1112


Q ss_pred             HHHHHHHHHHHhc----------CChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          280 EIFNSLIRGCCKF----------GIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       280 ~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+..+...+...          |++++|...|+++.+.. +.+...+..+..++.+.|++++|...|++..+.
T Consensus       419 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          419 GPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            2244455677777          99999999999999874 457889999999999999999999999999984

>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=99.91  E-value=7.9e-21  Score=157.30  Aligned_cols=294  Identities=11%  Similarity=-0.036  Sum_probs=238.8

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      |.++..+..+...+...|++++|+.+|+++.+.. +.+...+..++.++...|++++|...++++.+..       +.+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------~~~~   90 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-------PSNP   90 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TTST
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-------cCCH
Confidence            3377888889999999999999999999998774 4456677778888899999999999999998864       5567


Q ss_pred             hhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 044256          101 FCYGSLIDGLCKDR-LVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGY  172 (363)
Q Consensus       101 ~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (363)
                      ..|..+...+...| ++++|...|++..+.......       .+...|++++|...++.+.+.. +.+...+..+...+
T Consensus        91 ~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~  169 (330)
T 3hym_B           91 VSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHH
Confidence            88899999999999 999999999999876543222       6678899999999999998875 33566777899999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc-CCCCChHHHHHHH
Q 044256          173 CLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC-NVVPETFTCNIFI  251 (363)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ll  251 (363)
                      ...|++++|...++...+.. +.+...+..+...+...|++++|...++++....     ...... ..+....++..+.
T Consensus       170 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----~~~~~~~~~~~~~~~~~~la  243 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKI-----KAIGNEVTVDKWEPLLNNLG  243 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----TTTSCSCTTTTCCHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHh-----hhccccccccHHHHHHHHHH
Confidence            99999999999999998874 4467889999999999999999999998876532     111110 1133457889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH-HccCCh
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL-GKEGQI  330 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~  330 (363)
                      .++...|++++|...++++.+.. +.+..++..+..++...|++++|.+.++++.+.. +.+...+..+..++ ...|+.
T Consensus       244 ~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          244 HVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCch
Confidence            99999999999999999998875 6678899999999999999999999999998874 45778888888877 456654


Q ss_pred             h
Q 044256          331 K  331 (363)
Q Consensus       331 ~  331 (363)
                      +
T Consensus       322 ~  322 (330)
T 3hym_B          322 E  322 (330)
T ss_dssp             -
T ss_pred             h
Confidence            4

>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=99.90  E-value=1.3e-21  Score=164.62  Aligned_cols=282  Identities=12%  Similarity=-0.038  Sum_probs=201.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      ...+..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|...|+++.+..       +.+..++
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------~~~~~~~  135 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-------PDNQTAL  135 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-------CCCHHHH
Confidence            3456667777777777777777777777653 3345566677777777777777777777777653       4456667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      ..+..++...|++++|...++++.+..+.........+.....           ..+. ..+..+ ..+...|++++|..
T Consensus       136 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~-~~~~~~-~~~~~~~~~~~A~~  202 (368)
T 1fch_A          136 MALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGG-----------AGLG-PSKRIL-GSLLSDSLFLEVKE  202 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------------------CTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhh-----------hccc-HHHHHH-HHHhhcccHHHHHH
Confidence            7777777777777777777777766533222111111000000           0000 011122 33338899999999


Q ss_pred             HHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          184 LFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       184 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      .++++.+..... +..++..+...+.+.|++++|...++++....             +.+..++..+...+...|++++
T Consensus       203 ~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------~~~~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          203 LFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-------------PNDYLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------cCCHHHHHHHHHHHHHcCCHHH
Confidence            999998874221 47888999999999999999999998887653             2456789999999999999999


Q ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc-----------HHHHHHHHHHHHccCChh
Q 044256          263 VMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD-----------VVAYNILIHALGKEGQIK  331 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~li~~~~~~g~~~  331 (363)
                      |...++++.+.. +.+..++..+..+|.+.|++++|...|+++.... +.+           ..+|..+..++...|+++
T Consensus       270 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          270 AVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ-RKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            999999998875 6678899999999999999999999999988652 112           688999999999999999


Q ss_pred             HHHHHHHHHH
Q 044256          332 KENYLLLSME  341 (363)
Q Consensus       332 ~a~~~~~~m~  341 (363)
                      +|..++++.+
T Consensus       348 ~A~~~~~~~l  357 (368)
T 1fch_A          348 AYGAADARDL  357 (368)
T ss_dssp             GHHHHHTTCH
T ss_pred             hHHHhHHHHH
Confidence            9999877543

>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=99.89  E-value=3.7e-20  Score=153.29  Aligned_cols=271  Identities=10%  Similarity=-0.075  Sum_probs=230.2

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-ChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-NMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~   79 (363)
                      .|++++|.++|+.+.+.  .|.+...+..++.++...|++++|..+++++.+.. +.+...|..+...+...| ++++|.
T Consensus        35 ~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~  111 (330)
T 3hym_B           35 NCDFKMCYKLTSVVMEK--DPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHAR  111 (330)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHH
T ss_pred             cCCHHHHHHHHHHHHHc--CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHH
Confidence            48899999999999987  66678889999999999999999999999999874 446778899999999999 999999


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-------hhhccCChHHHHHHHHH
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-------LLCKKTKLVEANRLLEL  152 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~  152 (363)
                      ..|+.+.+..       +.+...|..+..++...|++++|...+++..+.......       .+...|++++|...++.
T Consensus       112 ~~~~~a~~~~-------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  184 (330)
T 3hym_B          112 RYLSKATTLE-------KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQ  184 (330)
T ss_dssp             HHHHHHHTTC-------TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhC-------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999864       556788999999999999999999999999987554332       67789999999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          153 MMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKG--------FMPDVFSYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                      +.+.. +.+..++..+...+...|++++|...+++..+..        .+....++..+...+...|++++|...+++..
T Consensus       185 al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  263 (330)
T 3hym_B          185 ALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQAL  263 (330)
T ss_dssp             HHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99875 4567889999999999999999999999887641        13345788899999999999999999998887


Q ss_pred             HhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHH-HhcCChH
Q 044256          225 LNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGC-CKFGIFE  296 (363)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~~~  296 (363)
                      ...             +.+...+..+..++...|++++|.+.++++.+.. +.+...+..+..++ ...|+.+
T Consensus       264 ~~~-------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          264 VLI-------------PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHS-------------TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             hhC-------------ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            654             3467788999999999999999999999998775 56778888888877 4555543

>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=2.9e-19  Score=149.57  Aligned_cols=302  Identities=11%  Similarity=-0.017  Sum_probs=235.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ++..+..+...+...|++++|+..|+++.+.. +.+..++..+..++...|++++|...++.+.+..       +.+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~   73 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-------MDFTAA   73 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------CCcchH
Confidence            67789999999999999999999999998874 4467788999999999999999999999999864       456788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-chhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINA-NTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVA  181 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  181 (363)
                      +..+..++...|++++|...|++..+..+.. +.        ..+...+..+..      ...+..+...+...|++++|
T Consensus        74 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~--------~~~~~~l~~~~~------~~~~~~~a~~~~~~~~~~~A  139 (359)
T 3ieg_A           74 RLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEE--------KEAESQLVKADE------MQRLRSQALDAFDGADYTAA  139 (359)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHH--------HHHHHHHHHHHH------HHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCcccCh--------HHHHHHHHHHHH------HHHHHHHHHHHHHccCHHHH
Confidence            9999999999999999999999998753310 10        011111111100      11233446788999999999


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHH
Q 044256          182 IALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVL  261 (363)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  261 (363)
                      ...++.+.+.. +.+...+..+...+...|++++|...++++....             +.+...+..+...+...|+++
T Consensus       140 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~la~~~~~~~~~~  205 (359)
T 3ieg_A          140 ITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-------------SDNTEAFYKISTLYYQLGDHE  205 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-------------SCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHcCCHH
Confidence            99999998874 3467888999999999999999998888876543             346778899999999999999


Q ss_pred             HHHHHHHHHHhccCcchHHHHH------------HHHHHHHhcCChHHHHHHHHHhhhCCCCccH----HHHHHHHHHHH
Q 044256          262 EVMELFPTLEISNCELFVEIFN------------SLIRGCCKFGIFEIASELFNKLSCKNLVADV----VAYNILIHALG  325 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~  325 (363)
                      +|...++++.+.. +.+...+.            .+...+.+.|++++|...++++.... +.+.    ..+..+..++.
T Consensus       206 ~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~  283 (359)
T 3ieg_A          206 LSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFS  283 (359)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHH
Confidence            9999999998764 43444333            33667899999999999999998864 2233    33556778899


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhcC
Q 044256          326 KEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQKE  363 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  363 (363)
                      ..|++++|...+++..+. .+.+...+..+-..|.+.|
T Consensus       284 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g  320 (359)
T 3ieg_A          284 KDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEE  320 (359)
T ss_dssp             HTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTT
T ss_pred             HccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcC
Confidence            999999999999999985 2336777777777766543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=1.2e-20  Score=158.68  Aligned_cols=277  Identities=10%  Similarity=-0.076  Sum_probs=215.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|...|+++.+..       +.+..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------p~~~~~  135 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-------PNNLKA  135 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------CCCHHH
Confidence            44558899999999999999999999998874 4567788999999999999999999999998864       556888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      |..+..++...|++++|...|+++.+..+........                  .......+..+...+...|++++|.
T Consensus       136 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~------------------~~~~~~~~~~l~~~~~~~g~~~~A~  197 (365)
T 4eqf_A          136 LMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKN------------------KKGSPGLTRRMSKSPVDSSVLEGVK  197 (365)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------------------------CCHHHHHHH
T ss_pred             HHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhh------------------hccchHHHHHHHHHHhhhhhHHHHH
Confidence            9999999999999999999999988742210000000                  0011234555688899999999999


Q ss_pred             HHHHHHHHcCCC-CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHH
Q 044256          183 ALFDSMARKGFM-PDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVL  261 (363)
Q Consensus       183 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  261 (363)
                      .+++++.+.... ++..++..+...|...|++++|...+++++...             +.+..++..+..+|...|+++
T Consensus       198 ~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------p~~~~~~~~l~~~~~~~g~~~  264 (365)
T 4eqf_A          198 ELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-------------PEDYSLWNRLGATLANGDRSE  264 (365)
T ss_dssp             HHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHcCCHH
Confidence            999999887422 157889999999999999999999998887654             345778999999999999999


Q ss_pred             HHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC-----------ccHHHHHHHHHHHHccCCh
Q 044256          262 EVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV-----------ADVVAYNILIHALGKEGQI  330 (363)
Q Consensus       262 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~  330 (363)
                      +|...|+++.+.. +.+..++..+..+|...|++++|...|+++.+....           .+...|..+..++...|+.
T Consensus       265 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  343 (365)
T 4eqf_A          265 EAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQP  343 (365)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcH
Confidence            9999999998875 566889999999999999999999999998864210           1367899999999999999


Q ss_pred             hHHHHHHHH
Q 044256          331 KKENYLLLS  339 (363)
Q Consensus       331 ~~a~~~~~~  339 (363)
                      +.+..+.++
T Consensus       344 ~~a~~~~~~  352 (365)
T 4eqf_A          344 ELFQAANLG  352 (365)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHh
Confidence            998887665

>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=99.88  E-value=2.1e-19  Score=158.97  Aligned_cols=293  Identities=11%  Similarity=-0.035  Sum_probs=191.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..|..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++.+.|++++|++.|+++.+..       +.+..+
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-------p~~~~~   95 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-------PDHSKA   95 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------CchHHH
Confidence            45778999999999999999999999999875 4577889999999999999999999999999865       567889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-----------------------------------------------
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-----------------------------------------------  135 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------------------------------------------  135 (363)
                      +..+..++...|++++|...|+.+. ....+..                                               
T Consensus        96 ~~~la~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  174 (537)
T 3fp2_A           96 LLRRASANESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIF  174 (537)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhc
Confidence            9999999999999999999886331 1110000                                               


Q ss_pred             ------------------------------------hhhccCChHHHHHHHHHHHHcCCCCc-------hhhHHHHHHHH
Q 044256          136 ------------------------------------LLCKKTKLVEANRLLELMMQRGLNPV-------IFTYTPLLNGY  172 (363)
Q Consensus       136 ------------------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~  172 (363)
                                                          .....+++++|...++.+.+... .+       ..++..+...+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          175 DSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANT-VDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             CHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--C-CCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCC-CcchhhHHHHHHHHHHHHHH
Confidence                                                00011366677777777766531 11       22455556667


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHH
Q 044256          173 CLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFID  252 (363)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  252 (363)
                      ...|++++|...++.+.+.  .|+...+..+...+...|++++|...++++....             +.+..++..+..
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~l~~  318 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-------------PEYPPTYYHRGQ  318 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-------------TTCHHHHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-------------CCCHHHHHHHHH
Confidence            7777778888887777765  3456667777777777777777777777776543             123444555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhH
Q 044256          253 GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       253 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  332 (363)
                      .+...|++++|...++++.... +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       319 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  396 (537)
T 3fp2_A          319 MYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDT  396 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHH
Confidence            5555555555555555555443 3334455555555555555555555555555442 2334455555555555555555


Q ss_pred             HHHHHHHHHH
Q 044256          333 ENYLLLSMEE  342 (363)
Q Consensus       333 a~~~~~~m~~  342 (363)
                      |...|+++.+
T Consensus       397 A~~~~~~a~~  406 (537)
T 3fp2_A          397 AIKQYDIAKR  406 (537)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>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=99.88  E-value=3.3e-20  Score=156.07  Aligned_cols=281  Identities=8%  Similarity=-0.091  Sum_probs=215.1

Q ss_pred             HHhcCCHHHHHH-HHHHHHhcCC-CC--CcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHH
Q 044256           34 FCMEGNIRDASQ-LVKKMATFGC-RP--NVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDG  109 (363)
Q Consensus        34 ~~~~~~~~~a~~-~~~~m~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~  109 (363)
                      +...|++++|+. .|++...... .|  +...+..+...+.+.|++++|...|+++.+..       +.+..++..+..+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-------p~~~~~~~~l~~~  107 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-------PKHMEAWQYLGTT  107 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-------TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------CCCHHHHHHHHHH
Confidence            445678889988 8886654421 11  35678889999999999999999999999864       5678889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          110 LCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       110 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                      +.+.|++++|...|+++.+..                            +.+..++..+...+...|++++|...++.+.
T Consensus       108 ~~~~g~~~~A~~~~~~al~~~----------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  159 (368)
T 1fch_A          108 QAENEQELLAISALRRCLELK----------------------------PDNQTALMALAVSFTNESLQRQACEILRDWL  159 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHCcCHHHHHHHHHHHHhcC----------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999999999988652                            3356788889999999999999999999998


Q ss_pred             HcCCCCcHhHHHH---------------HHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHH
Q 044256          190 RKGFMPDVFSYSV---------------LINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL  254 (363)
Q Consensus       190 ~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  254 (363)
                      ..... +...+..               .+..+...|++++|...++++.....           ..++..++..+...+
T Consensus       160 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-----------~~~~~~~~~~l~~~~  227 (368)
T 1fch_A          160 RYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDP-----------TSIDPDVQCGLGVLF  227 (368)
T ss_dssp             HTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHST-----------TSCCHHHHHHHHHHH
T ss_pred             HhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCc-----------CcccHHHHHHHHHHH
Confidence            86422 2222221               23344488999999999888876540           011477889999999


Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHH
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKEN  334 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  334 (363)
                      ...|++++|...++++.... +.+..++..+...+...|++++|...++++.+.. +.+...+..+..++.+.|++++|.
T Consensus       228 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  305 (368)
T 1fch_A          228 NLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAV  305 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998875 6678899999999999999999999999998864 557889999999999999999999


Q ss_pred             HHHHHHHHcCCC---C-------CHHHHHHHHHHHhhcC
Q 044256          335 YLLLSMEENGCA---L-------DVDTFNTLMISFLQKE  363 (363)
Q Consensus       335 ~~~~~m~~~g~~---p-------~~~~~~~ll~~~~~~~  363 (363)
                      ..|+++.+..-.   |       ...+|..+..+|.+.|
T Consensus       306 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  344 (368)
T 1fch_A          306 EHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLG  344 (368)
T ss_dssp             HHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhC
Confidence            999999874211   1       1577888877776543

>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=99.87  E-value=1.4e-19  Score=149.52  Aligned_cols=281  Identities=7%  Similarity=-0.050  Sum_probs=221.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      +...|..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|...++++.+..       +.+..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------~~~~~~   91 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-------PKDIAV   91 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------cCCHHH
Confidence            45667888999999999999999999998874 4467788889999999999999999999999864       567888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHH-HH-HHHhcCCHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPL-LN-GYCLVGKVNV  180 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~-~~~~~~~~~~  180 (363)
                      +..+...+...|++++|...++++.+............               ....|+......+ .. .+...|++++
T Consensus        92 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (327)
T 3cv0_A           92 HAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVN---------------LQADVDIDDLNVQSEDFFFAAPNEYRE  156 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC-----------------------------------CCTTSHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHH---------------hHHHHHHHHHHHHHHhHHHHHcccHHH
Confidence            99999999999999999999999987533221100000               0000111111122 22 3777899999


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          181 AIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       181 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      |...++++.+.. +.+...+..+...+...|++++|...++++....             +.+..++..+...+...|++
T Consensus       157 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~l~~~~~~~~~~  222 (327)
T 3cv0_A          157 CRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-------------PDDAQLWNKLGATLANGNRP  222 (327)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-------------CCcHHHHHHHHHHHHHcCCH
Confidence            999999988774 3367888899999999999999999988877653             24567888999999999999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc-----------cHHHHHHHHHHHHccCC
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA-----------DVVAYNILIHALGKEGQ  329 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~  329 (363)
                      ++|...++++.+.. +.+..++..+...+...|++++|.+.++++.......           +...|..+..++.+.|+
T Consensus       223 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          223 QEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCC
Confidence            99999999998775 5668889999999999999999999999988753221           57889999999999999


Q ss_pred             hhHHHHHHHHHH
Q 044256          330 IKKENYLLLSME  341 (363)
Q Consensus       330 ~~~a~~~~~~m~  341 (363)
                      +++|..++++.+
T Consensus       302 ~~~A~~~~~~~l  313 (327)
T 3cv0_A          302 PDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=1.5e-19  Score=151.98  Aligned_cols=254  Identities=12%  Similarity=0.006  Sum_probs=205.2

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|+..|+.+.+.  .|.++.+|..+..++...|++++|+..|+++.+.. +.+..+|..+..++...|++++|...
T Consensus        79 g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  155 (365)
T 4eqf_A           79 GDLPVTILFMEAAILQ--DPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEA  155 (365)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHH
Confidence            7899999999999987  67689999999999999999999999999999874 44577899999999999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhH----------HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCY----------GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLE  151 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~----------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  151 (363)
                      |+++.+..       +.+...+          ..+...+.+.|++++|...++++.+..+.                   
T Consensus       156 ~~~al~~~-------p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-------------------  209 (365)
T 4eqf_A          156 LKNWIKQN-------PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGD-------------------  209 (365)
T ss_dssp             HHHHHHHC-------HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCS-------------------
T ss_pred             HHHHHHhC-------ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcC-------------------
Confidence            99999854       2223333          33467788888888888888887764211                   


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHH
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKI  231 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (363)
                             .++..++..+...+...|++++|+..|+++.+.. +.+..+|..+..+|...|++++|...+++++...    
T Consensus       210 -------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~----  277 (365)
T 4eqf_A          210 -------MIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ----  277 (365)
T ss_dssp             -------SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             -------ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC----
Confidence                   1256788999999999999999999999998873 3467899999999999999999999999887654    


Q ss_pred             HHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-----------chHHHHHHHHHHHHhcCChHHHHH
Q 044256          232 FNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-----------LFVEIFNSLIRGCCKFGIFEIASE  300 (363)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~li~~~~~~~~~~~a~~  300 (363)
                               +.+..++..+..+|...|++++|...|+++.+....           .+..+|..+..++...|+.+.+.+
T Consensus       278 ---------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  348 (365)
T 4eqf_A          278 ---------PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQA  348 (365)
T ss_dssp             ---------TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHH
T ss_pred             ---------CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHH
Confidence                     234778999999999999999999999998865311           136789999999999999999988


Q ss_pred             HHHHh
Q 044256          301 LFNKL  305 (363)
Q Consensus       301 ~~~~~  305 (363)
                      +..+-
T Consensus       349 ~~~~~  353 (365)
T 4eqf_A          349 ANLGD  353 (365)
T ss_dssp             HHTTC
T ss_pred             HHHhh
Confidence            77653

>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=99.86  E-value=3.3e-19  Score=147.31  Aligned_cols=254  Identities=9%  Similarity=-0.064  Sum_probs=204.2

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|..+|+.+.+.  .|.+..+|..+..++...|++++|...|+++.+.. +.+..++..+..++...|++++|..
T Consensus        34 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  110 (327)
T 3cv0_A           34 LANLAEAALAFEAVCQA--APEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALA  110 (327)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            47899999999999987  67688999999999999999999999999999874 4467788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSL--------------ID-GLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVE  145 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (363)
                      .++.+.+..       +.+...+..+              .. .+...|++++|...++++.                  
T Consensus       111 ~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~------------------  165 (327)
T 3cv0_A          111 SLRAWLLSQ-------PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAAL------------------  165 (327)
T ss_dssp             HHHHHHHTS-------TTTTTC--------------------CCTTSHHHHHHHHHHHHHHH------------------
T ss_pred             HHHHHHHhC-------CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHH------------------
Confidence            999999854       3334444443              11 2444445555555555444                  


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                               +.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+
T Consensus       166 ---------~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          166 ---------EMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             ---------HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---------hhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                     432 3356788999999999999999999999998773 34678899999999999999999999988776


Q ss_pred             hhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc------------hHHHHHHHHHHHHhcC
Q 044256          226 NGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL------------FVEIFNSLIRGCCKFG  293 (363)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------------~~~~~~~li~~~~~~~  293 (363)
                      ..             +.+...+..+..++...|++++|.+.++++.... +.            +..++..+..++...|
T Consensus       235 ~~-------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  300 (327)
T 3cv0_A          235 IN-------------PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQ-VGGTTPTGEASREATRSMWDFFRMLLNVMN  300 (327)
T ss_dssp             HC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTSCC-----CCTHHHHHHHHHHHHHHHTT
T ss_pred             cC-------------CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccccccccchhhcCHHHHHHHHHHHHhcC
Confidence            53             2456788899999999999999999999998764 33            5789999999999999


Q ss_pred             ChHHHHHHHHHhhh
Q 044256          294 IFEIASELFNKLSC  307 (363)
Q Consensus       294 ~~~~a~~~~~~~~~  307 (363)
                      ++++|..++++...
T Consensus       301 ~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          301 RPDLVELTYAQNVE  314 (327)
T ss_dssp             CHHHHHHHTTCCSH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999876543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=1e-18  Score=141.45  Aligned_cols=250  Identities=9%  Similarity=0.030  Sum_probs=154.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCc--ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHH
Q 044256           33 GFCMEGNIRDASQLVKKMATFGCRPNV--TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGL  110 (363)
Q Consensus        33 ~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  110 (363)
                      -....|++..|+..+++....  .|+.  .....+.++|...|+++.|+..++.   .       -+|+..++..+...+
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-------~~~~~~a~~~la~~~   75 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-------SAPELQAVRMFAEYL   75 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-------SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-------CChhHHHHHHHHHHH
Confidence            344567777777777665433  2332  3445566777777777777765433   1       255666777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256          111 CKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMAR  190 (363)
Q Consensus       111 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (363)
                      ...++.++|++.++++...+..|+                          +...+..+...+...|++++|++.++.   
T Consensus        76 ~~~~~~~~A~~~l~~ll~~~~~P~--------------------------~~~~~~~la~~~~~~g~~~~Al~~l~~---  126 (291)
T 3mkr_A           76 ASHSRRDAIVAELDREMSRSVDVT--------------------------NTTFLLMAASIYFYDQNPDAALRTLHQ---  126 (291)
T ss_dssp             HCSTTHHHHHHHHHHHHHSCCCCS--------------------------CHHHHHHHHHHHHHTTCHHHHHHHHTT---
T ss_pred             cCCCcHHHHHHHHHHHHhcccCCC--------------------------CHHHHHHHHHHHHHCCCHHHHHHHHhC---
Confidence            777777777777777665432221                          334455555666777777777777665   


Q ss_pred             cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH---HHHHHHHhcCCHHHHHHHH
Q 044256          191 KGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN---IFIDGLCKNGHVLEVMELF  267 (363)
Q Consensus       191 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~  267 (363)
                         +.+...+..+...+.+.|++++|...++++....              |+.....   ..+..+...|++++|..+|
T Consensus       127 ---~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--------------p~~~~~~l~~a~~~l~~~~~~~~eA~~~~  189 (291)
T 3mkr_A          127 ---GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--------------EDATLTQLATAWVSLAAGGEKLQDAYYIF  189 (291)
T ss_dssp             ---CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHCTTHHHHHHHHH
T ss_pred             ---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--------------cCcHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence               3455666666677777777777776666665432              4432111   1222333446777777777


Q ss_pred             HHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhH-HHHHHHHHHH
Q 044256          268 PTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK-ENYLLLSMEE  342 (363)
Q Consensus       268 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~  342 (363)
                      +++.+.. +.+...++.+..++.+.|++++|...++++.... +-++.++..++..+...|+.++ +.++++++.+
T Consensus       190 ~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          190 QEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            7776653 5666677777777777777777777777766653 3466667777777777777654 4566676666

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=9.1e-21  Score=169.39  Aligned_cols=119  Identities=14%  Similarity=0.166  Sum_probs=110.7

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHH---hccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLE---ISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNI  319 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  319 (363)
                      -..||+++|++|++.|++++|.++|.+|.   ..|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45689999999999999999999998875   457899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCh-hHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          320 LIHALGKEGQI-KKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       320 li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      +|.++++.|+. ++|.++|++|.+.|+.||..||++++.++.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            99999999985 7899999999999999999999977766554

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=3.8e-18  Score=138.05  Aligned_cols=269  Identities=9%  Similarity=-0.022  Sum_probs=206.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLN-DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|+++.|+..++.+...  .|.+ ......+.++|...|+++.|+..++..    -+|+..++..+...+...++.++|+
T Consensus        12 ~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~   85 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIV   85 (291)
T ss_dssp             TTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHH
T ss_pred             HHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHH
Confidence            48899999988877554  4522 346677889999999999999877552    2567778888999999999999999


Q ss_pred             HHHHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC
Q 044256           80 KLHQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL  158 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  158 (363)
                      +.++++...+      ..| +...+..+..++...|++++|++.+++                                 
T Consensus        86 ~~l~~ll~~~------~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~---------------------------------  126 (291)
T 3mkr_A           86 AELDREMSRS------VDVTNTTFLLMAASIYFYDQNPDAALRTLHQ---------------------------------  126 (291)
T ss_dssp             HHHHHHHHSC------CCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT---------------------------------
T ss_pred             HHHHHHHhcc------cCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC---------------------------------
Confidence            9999998754      334 566777788999999999999998876                                 


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHH---HHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSY---SVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                      +.+...+..++..+.+.|++++|.+.|+.+.+..  |+....   ..++..+...|++++|..+|+++....        
T Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--------  196 (291)
T 3mkr_A          127 GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--------  196 (291)
T ss_dssp             CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--------
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--------
Confidence            1345678888999999999999999999998873  443211   223344445689999999888887654        


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHH-HHHHHHHhhhCCCCccH
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEI-ASELFNKLSCKNLVADV  314 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~~~~~~~~  314 (363)
                           +.+...++.+..++...|++++|...++++.... |.++.++..++..+...|+.++ +.++++++.+..  |+.
T Consensus       197 -----p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~  268 (291)
T 3mkr_A          197 -----SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSH  268 (291)
T ss_dssp             -----CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTC
T ss_pred             -----CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCC
Confidence                 4577889999999999999999999999998876 6678899999999999999876 678999988763  433


Q ss_pred             HHHHHHHHHHHccCChhHHHH
Q 044256          315 VAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       315 ~~~~~li~~~~~~g~~~~a~~  335 (363)
                      ...   .....+.+.++++..
T Consensus       269 ~~~---~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          269 PFI---KEYRAKENDFDRLVL  286 (291)
T ss_dssp             HHH---HHHHHHHHHHHHHHH
T ss_pred             hHH---HHHHHHHHHHHHHHH
Confidence            321   223344445555443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.82  E-value=1.5e-15  Score=132.55  Aligned_cols=201  Identities=12%  Similarity=0.006  Sum_probs=135.8

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh----cC
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCM----EGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR----TG   73 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~   73 (363)
                      +++++|...|+...+.   . ++.++..|...|..    .+++++|...|++..+.|   +...+..|...|..    .+
T Consensus        57 ~~~~~A~~~~~~a~~~---~-~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           57 KDLTQAMDWFRRAAEQ---G-YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCHHHHHHHHHHHHHT---T-CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             cCHHHHHHHHHHHHHC---C-CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            5677888888887764   2 56677778888877    788888888888877654   55566667777776    67


Q ss_pred             ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcch------hhhc----
Q 044256           74 NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINANT------LLCK----  139 (363)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~------~~~~----  139 (363)
                      ++++|...|+...+.+         +...+..|...|..    .+++++|.+.|++..+.+. +..      .+..    
T Consensus       130 ~~~~A~~~~~~a~~~~---------~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~-~~a~~~Lg~~y~~g~g~  199 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---------RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGN-VWSCNQLGYMYSRGLGV  199 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHTSSS
T ss_pred             CHHHHHHHHHHHHHCC---------CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHhcCCCC
Confidence            8888888888877643         35566666677766    6778888888887776542 222      2333    


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cC
Q 044256          140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK----NF  211 (363)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  211 (363)
                      .+++++|...+++..+.+   +...+..+...|..    .+++++|..+|+...+.|   +...+..+...|..    .+
T Consensus       200 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~  273 (490)
T 2xm6_A          200 ERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAK  273 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCC
Confidence            677777777777777654   34455666666664    667777777777766653   34455555555555    67


Q ss_pred             ChhHHHHHHHHHHH
Q 044256          212 NVEEAMNVSREMIL  225 (363)
Q Consensus       212 ~~~~a~~~~~~~~~  225 (363)
                      ++++|+..+++..+
T Consensus       274 d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          274 EPLKALEWYRKSAE  287 (490)
T ss_dssp             CHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777766666543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=2e-20  Score=167.28  Aligned_cols=141  Identities=6%  Similarity=-0.045  Sum_probs=119.8

Q ss_pred             CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256          194 MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS  273 (363)
Q Consensus       194 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  273 (363)
                      ..-..||+++|++|++.|+.++|..+|.+|.+         |...|+.||..|||+||.+|++.|++++|.++|++|.+.
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~---------m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~  194 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHG---------QRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA  194 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---------SHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---------HhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            33456899999999999999999988776643         234568899999999999999999999999999999999


Q ss_pred             cCcchHHHHHHHHHHHHhcCCh-HHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC
Q 044256          274 NCELFVEIFNSLIRGCCKFGIF-EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       274 ~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  348 (363)
                      |+.||..||++||.++++.|+. ++|.++|++|.+.|+.||..+|++++.+..+    +.+++..+++ .-++.|+
T Consensus       195 G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR----~~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR----ATVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             TCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH----HHHHHHHGGG-CCCCCCC
T ss_pred             CCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH----HHHHHHHHHh-CcccCCC
Confidence            9999999999999999999985 7899999999999999999999999876555    3455555555 3355554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=2e-16  Score=139.55  Aligned_cols=334  Identities=8%  Similarity=-0.002  Sum_probs=225.8

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHH-HhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGL-RRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~   79 (363)
                      .|++++|..+|+.+.+.  .|.+...|..++..+.+.|++++|..+|++++..  .|+...|...+... ...|+.+.|.
T Consensus        25 ~~~~~~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~a~  100 (530)
T 2ooe_A           25 NQPIDKARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPSYK  100 (530)
T ss_dssp             SSCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTTHH
T ss_pred             hCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhhHH
Confidence            37889999999999986  7878999999999999999999999999999987  47877777777533 4567777766


Q ss_pred             H----HHHHHHhccCCCCCccCCchhhHHHHHHHHHh---------cCCHHHHHHHHHHHHHcCCCcch-hh--------
Q 044256           80 K----LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK---------DRLVDQTKDLFMEMKDKGINANT-LL--------  137 (363)
Q Consensus        80 ~----~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~-~~--------  137 (363)
                      +    +|+.....-+.    .+++...|...+....+         .|+++.|..+|++..+....... .+        
T Consensus       101 ~~~~~~~~~al~~~g~----~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~  176 (530)
T 2ooe_A          101 EKMAQAYDFALDKIGM----EIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEE  176 (530)
T ss_dssp             HHHHHHHHHHHHHTTT----STTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCC----CcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHH
Confidence            5    77766653210    12456777777776554         67888888888888763211100 00        


Q ss_pred             ------------hccCChHHHHH---------------------------------------------------------
Q 044256          138 ------------CKKTKLVEANR---------------------------------------------------------  148 (363)
Q Consensus       138 ------------~~~~~~~~a~~---------------------------------------------------------  148 (363)
                                  ...+++..|..                                                         
T Consensus       177 ~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~  256 (530)
T 2ooe_A          177 GINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKR  256 (530)
T ss_dssp             HHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHH
T ss_pred             hhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHH
Confidence                        01122333332                                                         


Q ss_pred             ---HHHHHHHcCCCCchhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcC
Q 044256          149 ---LLELMMQRGLNPVIFTYTPLLNGYCL-------VGKVN-------VAIALFDSMARKGFMPDVFSYSVLINGYCKNF  211 (363)
Q Consensus       149 ---~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  211 (363)
                         .|++++... +.+...|..++..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.|
T Consensus       257 a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g  335 (530)
T 2ooe_A          257 VMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  335 (530)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC
Confidence               333333221 2234445555555554       57766       78888887775212335677778888888888


Q ss_pred             ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHH-
Q 044256          212 NVEEAMNVSREMILNGFKKIFNEMKLCNVVPET--FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRG-  288 (363)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-  288 (363)
                      ++++|..+|++++...              |+.  ..|..++..+.+.|++++|.++|++..+.. +.+...|...+.. 
T Consensus       336 ~~~~A~~~~~~al~~~--------------p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~  400 (530)
T 2ooe_A          336 KYEKVHSIYNRLLAIE--------------DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALME  400 (530)
T ss_dssp             CHHHHHHHHHHHHHSS--------------SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhCcc--------------ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHH
Confidence            8888888777776542              442  478888888888889999999999888753 3333333332222 


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcC-CCCC--HHHHHHHHHHH
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENG-CALD--VDTFNTLMISF  359 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~~~~~ll~~~  359 (363)
                      +...|+.++|..+|+...+.. +.+...|..++..+.+.|+.++|..+|++.+..+ ..|+  ...|...+...
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e  473 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  473 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHH
T ss_pred             HHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            335889999999999888763 4468888888888889999999999999998863 2332  33555544443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.81  E-value=1.2e-15  Score=133.14  Aligned_cols=301  Identities=11%  Similarity=-0.014  Sum_probs=248.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh----cC
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCM----EGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR----TG   73 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~   73 (363)
                      +++++|...|+...+.|    ++..+..+...|..    .+++++|+..|++....|   +...+..|...|..    .+
T Consensus        93 ~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  165 (490)
T 2xm6_A           93 QDYAQAVIWYKKAALKG----LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTR  165 (490)
T ss_dssp             CCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            67899999999998752    67888889999988    889999999999998865   56678888888887    78


Q ss_pred             ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcch-----hhhc----c
Q 044256           74 NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINANT-----LLCK----K  140 (363)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~-----~~~~----~  140 (363)
                      +.++|.+.|++..+.         .+...+..+...|..    .+++++|...|++..+.+.....     .+..    .
T Consensus       166 d~~~A~~~~~~a~~~---------~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~  236 (490)
T 2xm6_A          166 DYVMAREWYSKAAEQ---------GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVT  236 (490)
T ss_dssp             CHHHHHHHHHHHHHT---------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSC
T ss_pred             CHHHHHHHHHHHHHC---------CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC
Confidence            999999999999874         356788888888888    89999999999999887532221     3332    7


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc-----C
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN-----F  211 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~  211 (363)
                      +++++|...+++..+.+   +...+..+...|..    .++.++|..+|+...+.|   +...+..+...|...     +
T Consensus       237 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~  310 (490)
T 2xm6_A          237 QDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAK  310 (490)
T ss_dssp             CCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCC
T ss_pred             CCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcC
Confidence            89999999999998875   34566777777877    899999999999998775   556777777778776     8


Q ss_pred             ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC---CHHHHHHHHHHHHhccCcchHHHHHHHHHH
Q 044256          212 NVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG---HVLEVMELFPTLEISNCELFVEIFNSLIRG  288 (363)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  288 (363)
                      ++++|...+++..+.+               +...+..+...|...|   ++++|++.|++..+.+   ++..+..|...
T Consensus       311 ~~~~A~~~~~~a~~~~---------------~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~  372 (490)
T 2xm6_A          311 NREQAISWYTKSAEQG---------------DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNA  372 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---------------CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC---------------CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            9999999888876643               4456677777777756   7899999999998875   56788888888


Q ss_pred             HHh----cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcCC
Q 044256          289 CCK----FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       289 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  345 (363)
                      |..    .+++++|...|++..+.+   ++..+..+...|.+    .+++++|...|++..+.+.
T Consensus       373 y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          373 LLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            888    899999999999999875   67788888888887    8999999999999998763

>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=99.81  E-value=4.1e-19  Score=147.14  Aligned_cols=270  Identities=12%  Similarity=0.077  Sum_probs=105.1

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|.+.++++      + ++.+|..++.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|+..
T Consensus        17 ~~ld~A~~fae~~------~-~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           17 GNLDRAYEFAERC------N-EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCHHHHHHHHHhC------C-ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            5678888888888      2 446999999999999999999999965      35777999999999999999999998


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~  155 (363)
                      ++..++.        .+++.+.+.++.+|.+.|+++++.++++.     +....      .+...|.+++|...|..+  
T Consensus        84 l~~ark~--------~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~-----pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--  148 (449)
T 1b89_A           84 LQMARKK--------ARESYVETELIFALAKTNRLAELEEFING-----PNNAHIQQVGDRCYDEKMYDAAKLLYNNV--  148 (449)
T ss_dssp             ---------------------------------CHHHHTTTTTC-----C----------------CTTTHHHHHHHT--
T ss_pred             HHHHHHh--------CccchhHHHHHHHHHHhCCHHHHHHHHcC-----CcHHHHHHHHHHHHHcCCHHHHHHHHHHh--
Confidence            8877763        45578899999999999999998888752     11111      566777777777777755  


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                             ..|..++.++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......             
T Consensus       149 -------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-------------  202 (449)
T 1b89_A          149 -------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-------------  202 (449)
T ss_dssp             -------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-------------
T ss_pred             -------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-------------
Confidence                   36777777777777777777777766      2667777777777777777777433221             


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHH
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVV  315 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  315 (363)
                          +..++.....++..|.+.|++++|..+++...... +-...+|+-|..+|++- ++++..+.++...+.   .+  
T Consensus       203 ----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~---in--  271 (449)
T 1b89_A          203 ----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSR---VN--  271 (449)
T ss_dssp             ----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTT---SC--
T ss_pred             ----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHH---hc--
Confidence                11233334456777777777777777777776655 55566777776666654 344444333333221   11  


Q ss_pred             HHHHHHHHHHccCChhHHHHHH
Q 044256          316 AYNILIHALGKEGQIKKENYLL  337 (363)
Q Consensus       316 ~~~~li~~~~~~g~~~~a~~~~  337 (363)
                       ..-+|++|....-|.+..-++
T Consensus       272 -i~k~~~~~~~~~~w~e~~~ly  292 (449)
T 1b89_A          272 -IPKVLRAAEQAHLWAELVFLY  292 (449)
T ss_dssp             -HHHHHHHHHTTTCHHHHHHHH
T ss_pred             -CcHHHHHHHHHHHHHHHHHHH
Confidence             123556666666666555444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.80  E-value=1.4e-16  Score=138.57  Aligned_cols=330  Identities=11%  Similarity=-0.045  Sum_probs=213.8

Q ss_pred             ChhhhhHHHHHHHHHHc-------CCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCC-CcccHHHHH
Q 044256            1 TSKVLGALMAFGSFIRR-------CYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFG------CRP-NVTTCDTLI   66 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~-------~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~-~~~~~~~l~   66 (363)
                      .|++++|++.|++..+.       ...|....+|+.+..+|...|++++|...+++..+..      ..+ ...++..+.
T Consensus        64 ~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g  143 (472)
T 4g1t_A           64 KGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEG  143 (472)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHH
Confidence            38899999999987652       1245456789999999999999999999999876531      111 234555555


Q ss_pred             HHHHhc--CChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHH---HHhcCCHHHHHHHHHHHHHcCCCcch------
Q 044256           67 TGLRRT--GNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDG---LCKDRLVDQTKDLFMEMKDKGINANT------  135 (363)
Q Consensus        67 ~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~------  135 (363)
                      .++...  +++++|+..|++..+..       |.+...+..+..+   +...++.++|++.+++..+..+....      
T Consensus       144 ~~~~~~~~~~y~~A~~~~~kal~~~-------p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~  216 (472)
T 4g1t_A          144 WTRLKCGGNQNERAKVCFEKALEKK-------PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLA  216 (472)
T ss_dssp             HHHHHHCTTHHHHHHHHHHHHHHHS-------TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHHHHHccccHHHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHH
Confidence            555544  57899999999999854       3445566655555   34567788899999988876543322      


Q ss_pred             -----hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 044256          136 -----LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN  210 (363)
Q Consensus       136 -----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  210 (363)
                           .....+++++|.+.+++..... +.+..++..+...|...|++++|...+++..+.. +.+..++..+..+|...
T Consensus       217 ~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~  294 (472)
T 4g1t_A          217 LKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAK  294 (472)
T ss_dssp             HHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHH
Confidence                 1234578889999999988775 4567788899999999999999999999988873 23555666665555322


Q ss_pred             -------------------CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          211 -------------------FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLE  271 (363)
Q Consensus       211 -------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  271 (363)
                                         +..+.|...+++.....             +.+...+..+...+...|++++|+..|++..
T Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-------------~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL  361 (472)
T 4g1t_A          295 VFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-------------DNLFRVCSILASLHALADQYEEAEYYFQKEF  361 (472)
T ss_dssp             HHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-------------TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-------------CchhhhhhhHHHHHHHhccHHHHHHHHHHHH
Confidence                               12333444443333322             2345678888999999999999999999998


Q ss_pred             hccCcchHH--HHHHHHH-HHHhcCChHHHHHHHHHhhhCC-----------------------CCccHHHHHHHHHHHH
Q 044256          272 ISNCELFVE--IFNSLIR-GCCKFGIFEIASELFNKLSCKN-----------------------LVADVVAYNILIHALG  325 (363)
Q Consensus       272 ~~~~~~~~~--~~~~li~-~~~~~~~~~~a~~~~~~~~~~~-----------------------~~~~~~~~~~li~~~~  325 (363)
                      .....+...  .+..+.. .....|++++|...|++..+..                       -+.+..+|..+..+|.
T Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~  441 (472)
T 4g1t_A          362 SKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQE  441 (472)
T ss_dssp             HSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHH
T ss_pred             hcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            775333221  2333332 3457789999999988876542                       1335678889999999


Q ss_pred             ccCChhHHHHHHHHHHHcC-CCCCHHHH
Q 044256          326 KEGQIKKENYLLLSMEENG-CALDVDTF  352 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~~g-~~p~~~~~  352 (363)
                      ..|++++|++.|++.++.| ..|+..+|
T Consensus       442 ~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          442 LNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHCC----------------------
T ss_pred             HcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            9999999999999999864 34555443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=1.5e-16  Score=126.70  Aligned_cols=231  Identities=10%  Similarity=0.006  Sum_probs=142.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..|..+...+...|++++|+..|+++.+..  .+..+|..+..++...|++++|...++.+.+..+......+....+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            46789999999999999999999999999887  7888999999999999999999999999988541100000001577


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      |..+..++...|++++|...|++..+..                             |+.       ..+...|++++|.
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----------------------------~~~-------~~~~~~~~~~~a~  125 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEH-----------------------------RTA-------DILTKLRNAEKEL  125 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------------CCH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC-----------------------------chh-------HHHHHHhHHHHHH
Confidence            8888888888888888888888887642                             221       2334445555666


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      ..++.+.... +.+...+..+...+...|++++|...++++....             +.+...+..+..++...|++++
T Consensus       126 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-------------~~~~~~~~~l~~~~~~~~~~~~  191 (258)
T 3uq3_A          126 KKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-------------PEDARGYSNRAAALAKLMSFPE  191 (258)
T ss_dssp             HHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------------cccHHHHHHHHHHHHHhCCHHH
Confidence            6555555431 1123344444444555555555555444443322             1233344444444445555555


Q ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          263 VMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      |...++++.+.. +.+..++..+..++...|++++|...+++..
T Consensus       192 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          192 AIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            555555444432 3334444444444444444444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=4.8e-17  Score=130.91  Aligned_cols=119  Identities=8%  Similarity=-0.102  Sum_probs=56.9

Q ss_pred             hhhhhHHHHHHHHHHcCC--CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            2 SKVLGALMAFGSFIRRCY--RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~--~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      |++++|+..|+.+.+...  .|.++.+|..+...+...|++++|+..|+++.+.. +.+..+|..+..++...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            445555555555554311  12234445555555555555555555555554442 223444455555555555555555


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      ..|+++.+..       +.+..++..+..++.+.|++++|...++++.+
T Consensus        98 ~~~~~al~~~-------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  139 (275)
T 1xnf_A           98 EAFDSVLELD-------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  139 (275)
T ss_dssp             HHHHHHHHHC-------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-------ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            5555555432       22344444455555555555555555544443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.78  E-value=1.7e-16  Score=126.38  Aligned_cols=244  Identities=8%  Similarity=-0.007  Sum_probs=199.7

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhh
Q 044256           59 VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      ...|..+...+...|++++|...|+++.+.       . .+..+|..+..++...|++++|...+++..+....      
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~-------~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~------   70 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWEL-------H-KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGRE------   70 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------S-CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh-------h-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcc------
Confidence            346778888999999999999999999885       2 66788999999999999999999999998764110      


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChh
Q 044256          139 KKTKLVEANRLLELMMQRGLNPV----IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVE  214 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  214 (363)
                                         ..++    ..++..+...+...|++++|...|+...+.  .|+.       ..+...|+++
T Consensus        71 -------------------~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~  122 (258)
T 3uq3_A           71 -------------------MRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAE  122 (258)
T ss_dssp             -------------------TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHH
T ss_pred             -------------------cccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHH
Confidence                               0111    468888999999999999999999999886  3443       3466778899


Q ss_pred             HHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC
Q 044256          215 EAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI  294 (363)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  294 (363)
                      +|...++++....             +.+...+..+...+...|++++|...++++.+.. +.+..++..+..++...|+
T Consensus       123 ~a~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~  188 (258)
T 3uq3_A          123 KELKKAEAEAYVN-------------PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMS  188 (258)
T ss_dssp             HHHHHHHHHHHCC-------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcC-------------cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCC
Confidence            9998888877654             1345678888999999999999999999999875 6678899999999999999


Q ss_pred             hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcC----CCCCHHHHHHHHHHH
Q 044256          295 FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENG----CALDVDTFNTLMISF  359 (363)
Q Consensus       295 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g----~~p~~~~~~~ll~~~  359 (363)
                      +++|...++++.+.. +.+...|..+..++...|++++|...+++..+..    ..|+.......+..+
T Consensus       189 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          189 FPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            999999999998874 5568899999999999999999999999998742    227766655555443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=4.8e-15  Score=128.86  Aligned_cols=309  Identities=10%  Similarity=-0.063  Sum_probs=220.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----C--CCC-CcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATF-----G--CRP-NVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGG   94 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   94 (363)
                      ....||.+...+...|++++|++.|++..+.     +  ..| ...+|+.+..+|...|++++|...+++..+.......
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4677999999999999999999999987542     1  122 3457889999999999999999999988764322211


Q ss_pred             ccCC-chhhHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCcch----------hhhccCChHHHHHHHHHHHHcCCCCc
Q 044256           95 IYKP-NVFCYGSLIDGLCKD--RLVDQTKDLFMEMKDKGINANT----------LLCKKTKLVEANRLLELMMQRGLNPV  161 (363)
Q Consensus        95 ~~~~-~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (363)
                      ...+ ...++..+..++...  +++++|+..|++..+..+....          .+...++.++|.+.+++.++.. +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence            1222 345666666666554  5699999999999886543222          1335677788999999888764 344


Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHh
Q 044256          162 IFTYTPLLNGYCL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKL  237 (363)
Q Consensus       162 ~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (363)
                      ..++..+...+..    .++.++|.+++++..... +.+...+..+...|...|++++|...++++.+..          
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~----------  277 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI----------  277 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS----------
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC----------
Confidence            5566656555544    467889999999887763 4467788889999999999999999999887654          


Q ss_pred             cCCCCChHHHHHHHHHHHh-------------------cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHH
Q 044256          238 CNVVPETFTCNIFIDGLCK-------------------NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       238 ~~~~~~~~~~~~ll~~~~~-------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                         +.+..++..+..+|..                   .+..+.|...+++..... +.+..++..+...|...|++++|
T Consensus       278 ---p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A  353 (472)
T 4g1t_A          278 ---PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEA  353 (472)
T ss_dssp             ---TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHH
T ss_pred             ---CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHH
Confidence               2234455555544432                   234677888888887765 56677889999999999999999


Q ss_pred             HHHHHHhhhCCCCccHH--HHHHHHH-HHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          299 SELFNKLSCKNLVADVV--AYNILIH-ALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       299 ~~~~~~~~~~~~~~~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      ...|++..+....+...  .+..+.. .....|++++|+..|++.++  +.|+.
T Consensus       354 ~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~  405 (472)
T 4g1t_A          354 EYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKS  405 (472)
T ss_dssp             HHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCC
T ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCccc
Confidence            99999998875433221  2333332 34578999999999999887  44543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.76  E-value=2.1e-16  Score=122.26  Aligned_cols=201  Identities=12%  Similarity=-0.009  Sum_probs=156.5

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      |.++..+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|+..|++..+..       +.+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-------P~~~   73 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-------PRYL   73 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------CCcH
Confidence            3488899999999999999999999999999874 4467788999999999999999999999999865       5567


Q ss_pred             hhHHHHHHHHHhc-----------CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHH
Q 044256          101 FCYGSLIDGLCKD-----------RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLL  169 (363)
Q Consensus       101 ~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  169 (363)
                      ..+..+..++...           |++++|+..|++..+..                            +-+...+..+.
T Consensus        74 ~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~----------------------------P~~~~~~~~lg  125 (217)
T 2pl2_A           74 GGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN----------------------------PRYAPLHLQRG  125 (217)
T ss_dssp             HHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC----------------------------cccHHHHHHHH
Confidence            8889999999888           77777777777776541                            23467788899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHH
Q 044256          170 NGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNI  249 (363)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (363)
                      ..+...|++++|+..|++..+..  .+...+..+..++...|++++|...+++.++..             +.+...+..
T Consensus       126 ~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-------------P~~~~~~~~  190 (217)
T 2pl2_A          126 LVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-------------PKDLDLRVR  190 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-------------TTCHHHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------CCChHHHHH
Confidence            99999999999999999998886  688889999999999999999999999887764             245677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      +..++...|++++|...+++...
T Consensus       191 la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          191 YASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHTC----------------
T ss_pred             HHHHHHHccCHHHHHHHHHHHhh
Confidence            88899999999999999887653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.75  E-value=1.8e-16  Score=127.48  Aligned_cols=249  Identities=11%  Similarity=-0.046  Sum_probs=191.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHH
Q 044256           34 FCMEGNIRDASQLVKKMATFGCR---PNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGL  110 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  110 (363)
                      +...|++++|+..|+++.+....   .+..+|..+..++...|++++|...|+++.+..       +.+..+|..+..++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------~~~~~~~~~la~~~   87 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-------PDMPEVFNYLGIYL   87 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-------CCcHHHHHHHHHHH
Confidence            34568899999999999986321   135678889999999999999999999999864       55788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256          111 CKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMAR  190 (363)
Q Consensus       111 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (363)
                      ...|++++|...|++..+..                            +.+..++..+...+...|++++|...|+.+.+
T Consensus        88 ~~~~~~~~A~~~~~~al~~~----------------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  139 (275)
T 1xnf_A           88 TQAGNFDAAYEAFDSVLELD----------------------------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  139 (275)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC----------------------------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHhcC----------------------------ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            99999999999999988742                            23467888999999999999999999999988


Q ss_pred             cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          191 KGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTL  270 (363)
Q Consensus       191 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  270 (363)
                      .  .|+.......+..+...|++++|...+++.....             +++...+ .++..+...++.++|...++..
T Consensus       140 ~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~  203 (275)
T 1xnf_A          140 D--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-------------DKEQWGW-NIVEFYLGNISEQTLMERLKAD  203 (275)
T ss_dssp             H--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-------------CCCSTHH-HHHHHHTTSSCHHHHHHHHHHH
T ss_pred             h--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------------CcchHHH-HHHHHHHHhcCHHHHHHHHHHH
Confidence            6  3444444455555677799999998887766543             2333344 4677788888899999999988


Q ss_pred             HhccCc---chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHH
Q 044256          271 EISNCE---LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLL  337 (363)
Q Consensus       271 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  337 (363)
                      ......   .+..++..+...|...|++++|...|+++....  |+.  +.....++...|++++|++.+
T Consensus       204 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          204 ATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             hcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            765311   125788899999999999999999999998864  322  233355677888888888776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=2.7e-15  Score=120.43  Aligned_cols=250  Identities=10%  Similarity=-0.048  Sum_probs=175.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      |+..+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|+..++.+.+...    ........
T Consensus         2 n~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~   76 (272)
T 3u4t_A            2 NDDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVN----ATKAKSAD   76 (272)
T ss_dssp             ---CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSC----TTTCCHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccC----chhHHHHH
Confidence            45567777888889999999999999988764 33455888888889999999999999999887320    01111334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      |..+...+...|++++|...|++..+..                            +.+..++..+...|...|++++|+
T Consensus        77 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~----------------------------~~~~~~~~~l~~~~~~~~~~~~A~  128 (272)
T 3u4t_A           77 FEYYGKILMKKGQDSLAIQQYQAAVDRD----------------------------TTRLDMYGQIGSYFYNKGNFPLAI  128 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS----------------------------TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC----------------------------cccHHHHHHHHHHHHHccCHHHHH
Confidence            7888888888899999988888887642                            224567888888888899999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCC---
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGH---  259 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---  259 (363)
                      ..|++..+.. +.+...+..+...+...+++++|...++++.+..             +.+...+..+..++...|+   
T Consensus       129 ~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------------p~~~~~~~~~~~~~~~~~~~~~  194 (272)
T 3u4t_A          129 QYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-------------PNIYIGYLWRARANAAQDPDTK  194 (272)
T ss_dssp             HHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------------TTCHHHHHHHHHHHHHHSTTCS
T ss_pred             HHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-------------ccchHHHHHHHHHHHHcCcchh
Confidence            9888877762 3355566666623444558888888888776654             2235566667777777777   


Q ss_pred             HHHHHHHHHHHHhcc-Ccch------HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          260 VLEVMELFPTLEISN-CELF------VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       260 ~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                      +++|...++++.+.. -.|+      ..+|..+...|...|++++|.+.|+++.+.. +.+...+..+
T Consensus       195 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l  261 (272)
T 3u4t_A          195 QGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD-PTNKKAIDGL  261 (272)
T ss_dssp             SCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-ccHHHHHHHh
Confidence            777888887776542 1122      2567777778888888888888888887763 3344444444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.75  E-value=5.6e-16  Score=119.88  Aligned_cols=201  Identities=14%  Similarity=-0.070  Sum_probs=159.9

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 044256           97 KPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVG  176 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (363)
                      +++...+..+...+.+.|++++|...|++..+..                            +.+...+..+...+.+.|
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~----------------------------p~~~~a~~~lg~~~~~~g   53 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN----------------------------PQDPEALYWLARTQLKLG   53 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS----------------------------SSCHHHHHHHHHHHHHTT
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------------------CCCHHHHHHHHHHHHHcC
Confidence            5677888999999999999999999999988642                            335678888999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc-----------CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChH
Q 044256          177 KVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN-----------FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETF  245 (363)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (363)
                      ++++|+..+++..+.. +.+...+..+..++...           |++++|+..+++.++..             +.+..
T Consensus        54 ~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-------------P~~~~  119 (217)
T 2pl2_A           54 LVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-------------PRYAP  119 (217)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-------------TTCHH
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-------------cccHH
Confidence            9999999999998874 33667888888999999           99999999999887764             23567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      .+..+..++...|++++|+..|++..+..  .++..+..+..+|...|++++|...|+++.+.. +.+...+..+..++.
T Consensus       120 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~  196 (217)
T 2pl2_A          120 LHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALL  196 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            88889999999999999999999999887  678899999999999999999999999999874 557888999999999


Q ss_pred             ccCChhHHHHHHHHHHH
Q 044256          326 KEGQIKKENYLLLSMEE  342 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~  342 (363)
                      +.|++++|...|++...
T Consensus       197 ~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          197 LKGKAEEAARAAALEHH  213 (217)
T ss_dssp             C----------------
T ss_pred             HccCHHHHHHHHHHHhh
Confidence            99999999999987654

>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=99.75  E-value=9.6e-16  Score=128.13  Aligned_cols=253  Identities=10%  Similarity=-0.007  Sum_probs=204.4

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCC-hhHHHHHHHHHHhccCCCCCccCC
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGN-MNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      .|.+..+|+.+..++.+.|++++|+..|+++++.. +-+..+|+.+..++...|+ +++|+..|+++++..       +.
T Consensus        93 ~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-------P~  164 (382)
T 2h6f_A           93 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-------PK  164 (382)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-------TT
T ss_pred             ChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-------CC
Confidence            44457789999999999999999999999999874 3456788999999999997 999999999999965       56


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      +...|+.+..++...|++++|+..|+++++..                            +-+...|..+..++.+.|++
T Consensus       165 ~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld----------------------------P~~~~a~~~lg~~~~~~g~~  216 (382)
T 2h6f_A          165 NYQVWHHRRVLVEWLRDPSQELEFIADILNQD----------------------------AKNYHAWQHRQWVIQEFKLW  216 (382)
T ss_dssp             CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC----------------------------ccCHHHHHHHHHHHHHcCCh
Confidence            78899999999999999999999999988752                            33567899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh-cCChhHH-----HHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHH
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCK-NFNVEEA-----MNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFID  252 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  252 (363)
                      ++|+..|+++++.. +-+...|+.+..++.. .|..++|     +..+++.+...             +-+...|..+..
T Consensus       217 ~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-------------P~~~~a~~~l~~  282 (382)
T 2h6f_A          217 DNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-------------PHNESAWNYLKG  282 (382)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-------------TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-------------CCCHHHHHHHHH
Confidence            99999999999874 3367889999888888 6665777     46677666554             235667888888


Q ss_pred             HHHhcC--CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC---------ChHHHHHHHHHh-hhCCCCccHHHHHHH
Q 044256          253 GLCKNG--HVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG---------IFEIASELFNKL-SCKNLVADVVAYNIL  320 (363)
Q Consensus       253 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---------~~~~a~~~~~~~-~~~~~~~~~~~~~~l  320 (363)
                      .+...|  ++++|++.+.++ +.. +.+...+..+..+|.+.|         .+++|.++++++ .+.+ +.....|..+
T Consensus       283 ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~  359 (382)
T 2h6f_A          283 ILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD-TIRKEYWRYI  359 (382)
T ss_dssp             HHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHH
T ss_pred             HHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            888888  689999999888 433 667788889999998874         358999999998 6653 3455666666


Q ss_pred             HHHHH
Q 044256          321 IHALG  325 (363)
Q Consensus       321 i~~~~  325 (363)
                      ...+.
T Consensus       360 ~~~l~  364 (382)
T 2h6f_A          360 GRSLQ  364 (382)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65544

>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=99.74  E-value=1.5e-17  Score=137.92  Aligned_cols=244  Identities=12%  Similarity=0.076  Sum_probs=98.8

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC
Q 044256           36 MEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL  115 (363)
Q Consensus        36 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  115 (363)
                      +.|++++|.++++++.    .|  .+|..++.++.+.|++++|++.|.+            .+|..+|..++.++...|+
T Consensus        15 ~~~~ld~A~~fae~~~----~~--~vWs~La~A~l~~g~~~eAIdsfik------------a~D~~~y~~V~~~ae~~g~   76 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN----EP--AVWSQLAKAQLQKGMVKEAIDSYIK------------ADDPSSYMEVVQAANTSGN   76 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC----Ch--HHHHHHHHHHHHcCCHHHHHHHHHc------------CCCHHHHHHHHHHHHhCCC
Confidence            6788999999999983    23  4899999999999999999999953            3566799999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          116 VDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       116 ~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                      +++|...++..++....+..      .+.+.|++.++.++++       .|+..+|..+...|...|.+++|..+|..+ 
T Consensus        77 ~EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-  148 (449)
T 1b89_A           77 WEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-  148 (449)
T ss_dssp             --------------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-
Confidence            99999988877764222111      6677788888777764       366678888888888888888888888865 


Q ss_pred             HcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          190 RKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPT  269 (363)
Q Consensus       190 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  269 (363)
                              ..|..+..++.+.|++++|.+.++++                  .++.+|..++.+|...|+++.|......
T Consensus       149 --------~n~~~LA~~L~~Lg~yq~AVea~~KA------------------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~  202 (449)
T 1b89_A          149 --------SNFGRLASTLVHLGEYQAAVDGARKA------------------NSTRTWKEVCFACVDGKEFRLAQMCGLH  202 (449)
T ss_dssp             --------TCHHHHHHHHHTTTCHHHHHHHHHHH------------------TCHHHHHHHHHHHHHTTCHHHHHHTTTT
T ss_pred             --------hhHHHHHHHHHHhccHHHHHHHHHHc------------------CCchhHHHHHHHHHHcCcHHHHHHHHHH
Confidence                    36888888888888888888777765                  3667888888888888888888655443


Q ss_pred             HHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHH
Q 044256          270 LEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLL  338 (363)
Q Consensus       270 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  338 (363)
                      +.     .++.-...++..|.+.|.+++|..+++...... +-....|+-+..+|++- ++++..+.++
T Consensus       203 L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~  264 (449)
T 1b89_A          203 IV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLE  264 (449)
T ss_dssp             TT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHH
T ss_pred             HH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            22     222334467788888888888888888887665 55677777777666654 2344433333

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.74  E-value=1.6e-15  Score=121.87  Aligned_cols=246  Identities=8%  Similarity=-0.068  Sum_probs=192.4

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhh
Q 044256           59 VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      ...+......+...|++++|+..|+++.+..       +.+...+..+..++...|++++|...+++..+.+..+     
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-------p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-----   70 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-------YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNAT-----   70 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-------CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTT-----
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCch-----
Confidence            4456677888999999999999999999864       4556689999999999999999999999988732110     


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                                          ......|..+...+...|++++|+..|+...+.. +.+...+..+...|...|++++|..
T Consensus        71 --------------------~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  129 (272)
T 3u4t_A           71 --------------------KAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQ  129 (272)
T ss_dssp             --------------------TCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --------------------hHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHH
Confidence                                1123458889999999999999999999998863 3356789999999999999999998


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC---h
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI---F  295 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~  295 (363)
                      .+++.+...             +.+...+..+...+...+++++|...++++.+.. +.+...+..+..++...|+   +
T Consensus       130 ~~~~al~~~-------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~  195 (272)
T 3u4t_A          130 YMEKQIRPT-------------TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQ  195 (272)
T ss_dssp             HHGGGCCSS-------------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSS
T ss_pred             HHHHHhhcC-------------CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhh
Confidence            777665432             2345666666634555669999999999999875 5567888888888888888   8


Q ss_pred             HHHHHHHHHhhhCC-CCcc------HHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHH
Q 044256          296 EIASELFNKLSCKN-LVAD------VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFN  353 (363)
Q Consensus       296 ~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  353 (363)
                      ++|...++++.+.. -.|+      ...|..+...|...|++++|...|++..+.  .|+...-.
T Consensus       196 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~  258 (272)
T 3u4t_A          196 GLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILAL--DPTNKKAI  258 (272)
T ss_dssp             CTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CccHHHHH
Confidence            88999988887541 1233      257888889999999999999999999984  56654433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.73  E-value=8.7e-15  Score=113.83  Aligned_cols=206  Identities=7%  Similarity=-0.125  Sum_probs=145.7

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.++..|..+...+...|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+..       +.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------~~~   75 (225)
T 2vq2_A            4 ANQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-------PDS   75 (225)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-------CCC
Confidence            45467788888888888888888888888887764 3456677788888888888888888888888754       456


Q ss_pred             hhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256          100 VFCYGSLIDGLCKD-RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus       100 ~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      ..++..+...+... |++++|...++++.+.+..                          +.+...+..+...+...|++
T Consensus        76 ~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~--------------------------~~~~~~~~~l~~~~~~~~~~  129 (225)
T 2vq2_A           76 AEINNNYGWFLCGRLNRPAESMAYFDKALADPTY--------------------------PTPYIANLNKGICSAKQGQF  129 (225)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTC--------------------------SCHHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCC--------------------------cchHHHHHHHHHHHHHcCCH
Confidence            67777888888888 8888888888877751111                          22345667777777788888


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC-CChHHHHHHHHHHHhc
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV-PETFTCNIFIDGLCKN  257 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~  257 (363)
                      ++|...++.+.+.. +.+...+..+...+...|++++|...++++....             + .+...+..+...+...
T Consensus       130 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~  195 (225)
T 2vq2_A          130 GLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRV-------------EVLQADDLLLGWKIAKAL  195 (225)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-------------CSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------CCCCHHHHHHHHHHHHhc
Confidence            88888887776653 2245666677777777777777777766665543             2 3445555556666667


Q ss_pred             CCHHHHHHHHHHHHhc
Q 044256          258 GHVLEVMELFPTLEIS  273 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~  273 (363)
                      |+.+.+..+++.+.+.
T Consensus       196 ~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          196 GNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHh
Confidence            7777777777776544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=5.5e-14  Score=123.96  Aligned_cols=324  Identities=8%  Similarity=-0.014  Sum_probs=213.0

Q ss_pred             HHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccC
Q 044256           11 FGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMG   90 (363)
Q Consensus        11 ~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   90 (363)
                      |+..++.  .|.+..+|..++. +.+.|++++|..+|+++.+.. +.+...|..++..+.+.|++++|..+|++++..  
T Consensus         2 le~al~~--~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--   75 (530)
T 2ooe_A            2 AEKKLEE--NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--   75 (530)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--
T ss_pred             hhhHhhh--CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Confidence            5666665  7778999999998 478999999999999999863 446668999999999999999999999999984  


Q ss_pred             CCCCccCCchhhHHHHHHHH-HhcCCHHHHHH----HHHHHHHc-CCCcch--h------h----------hccCChHHH
Q 044256           91 DFGGIYKPNVFCYGSLIDGL-CKDRLVDQTKD----LFMEMKDK-GINANT--L------L----------CKKTKLVEA  146 (363)
Q Consensus        91 ~~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-~~~~~~--~------~----------~~~~~~~~a  146 (363)
                            .|+...|...+... ...|+.+.|.+    +|++.... |..|+.  .      +          ...|+++.|
T Consensus        76 ------~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a  149 (530)
T 2ooe_A           76 ------VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAV  149 (530)
T ss_dssp             ------CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHH
T ss_pred             ------CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHH
Confidence                  56888888777533 34577666654    77766553 444433  1      1          126889999


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHH-------------HhcCCHHHHHHHHHHHH------HcC---CCC---------
Q 044256          147 NRLLELMMQRGLNPVIFTYTPLLNGY-------------CLVGKVNVAIALFDSMA------RKG---FMP---------  195 (363)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~-------------~~~~~~~~a~~~~~~~~------~~~---~~~---------  195 (363)
                      ..+|+..++....+....|.......             .+.++++.|..++....      +..   ++|         
T Consensus       150 ~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~  229 (530)
T 2ooe_A          150 RRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQ  229 (530)
T ss_dssp             HHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHH
T ss_pred             HHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHH
Confidence            99999988731111122333222110             01233444544444311      110   122         


Q ss_pred             -----------------------------------------cHhHHHHHHHHHHh-------cCChh-------HHHHHH
Q 044256          196 -----------------------------------------DVFSYSVLINGYCK-------NFNVE-------EAMNVS  220 (363)
Q Consensus       196 -----------------------------------------~~~~~~~l~~~~~~-------~~~~~-------~a~~~~  220 (363)
                                                               +...|..+...+.+       .|+++       +|..++
T Consensus       230 ~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          230 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence                                                     22233333333332       34443       343333


Q ss_pred             HHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH-HHHHHHHHHHHhcCChHHH
Q 044256          221 REMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV-EIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a  298 (363)
                      ++.+.             .+.| +...|..++..+.+.|++++|..+|+++.+.. +.+. ..|..++..+.+.|++++|
T Consensus       310 ~~Al~-------------~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A  375 (530)
T 2ooe_A          310 ERAIS-------------TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSG  375 (530)
T ss_dssp             HHHTT-------------TTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-------------HhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCHHHH
Confidence            33321             1224 46788889999999999999999999999863 3233 5899999999999999999


Q ss_pred             HHHHHHhhhCCCCccHHHHHHHHHH-HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhc
Q 044256          299 SELFNKLSCKNLVADVVAYNILIHA-LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       299 ~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  362 (363)
                      .++|++..+.. +.+...|...... +...|++++|..+|++.++.. +-+...|..++..+.+.
T Consensus       376 ~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~  438 (530)
T 2ooe_A          376 RMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHL  438 (530)
T ss_dssp             HHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhC
Confidence            99999998763 2233444333222 346899999999999998852 23467777776665543

>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=99.72  E-value=9.7e-15  Score=115.79  Aligned_cols=199  Identities=9%  Similarity=-0.086  Sum_probs=95.0

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhc
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCK  139 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  139 (363)
                      ..|..+...+...|++++|...|+++.+..       +.+..++..+...+...|++++|.+.++++.+..         
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-------~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~---------  101 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-------PSSADAHAALAVVFQTEMEPKLADEEYRKALASD---------  101 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-------CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---------
Confidence            344555555556666666666666655532       3345555555556666666666666655555421         


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHH
Q 044256          140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                                         +.+...+..+...+...|++++|..+++++.+.+..| +...+..+...+...|++++|..
T Consensus       102 -------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  162 (252)
T 2ho1_A          102 -------------------SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKE  162 (252)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             -------------------cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHH
Confidence                               1133445555555555566666666555555421122 23344444444445555555544


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHH
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      .++++....             +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       163 ~~~~~~~~~-------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A  228 (252)
T 2ho1_A          163 YFEKSLRLN-------------RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTA  228 (252)
T ss_dssp             HHHHHHHHC-------------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHhcC-------------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHH
Confidence            444443321             1123334444444444444444444444444332 23333444444444444444444


Q ss_pred             HHHHHHhhh
Q 044256          299 SELFNKLSC  307 (363)
Q Consensus       299 ~~~~~~~~~  307 (363)
                      .+.++++.+
T Consensus       229 ~~~~~~~~~  237 (252)
T 2ho1_A          229 ASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>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=99.71  E-value=1e-14  Score=121.95  Aligned_cols=241  Identities=7%  Similarity=-0.063  Sum_probs=200.2

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCcchhhh
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL-VDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      ..|..+..++...|++++|+..++++++..       +.+..+|+.+..++...|+ +++|+..|++.++..        
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-------P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~--------  162 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-------AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--------  162 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-------ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC--------
Confidence            457788888999999999999999999864       5568899999999999996 999999999988752        


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                                          +-+...|..+..++...|++++|+..|+++.+.. +-+...|..+..++.+.|++++|+.
T Consensus       163 --------------------P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~  221 (382)
T 2h6f_A          163 --------------------PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQ  221 (382)
T ss_dssp             --------------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             --------------------CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHH
Confidence                                2356789999999999999999999999999874 3377889999999999999999999


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHh-cCCHHHH-----HHHHHHHHhccCcchHHHHHHHHHHHHhc
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK-NGHVLEV-----MELFPTLEISNCELFVEIFNSLIRGCCKF  292 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~  292 (363)
                      .+++++..+             +.+...|+.+..++.. .|..++|     +..+++.+... +-+...|..+...+...
T Consensus       222 ~~~~al~l~-------------P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~  287 (382)
T 2h6f_A          222 YVDQLLKED-------------VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDR  287 (382)
T ss_dssp             HHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhC-------------CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHcc
Confidence            999988765             2467789999999988 6665777     58899888875 66788999999999998


Q ss_pred             C--ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccC---------ChhHHHHHHHHH-HHcCCCCCHHHHHH
Q 044256          293 G--IFEIASELFNKLSCKNLVADVVAYNILIHALGKEG---------QIKKENYLLLSM-EENGCALDVDTFNT  354 (363)
Q Consensus       293 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---------~~~~a~~~~~~m-~~~g~~p~~~~~~~  354 (363)
                      |  ++++|.+.+.++ +. -+.+...+..+..+|.+.|         .+++|+++|+++ .+  +.|....|..
T Consensus       288 g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~  357 (382)
T 2h6f_A          288 GLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKE--KDTIRKEYWR  357 (382)
T ss_dssp             CGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHH
T ss_pred             CccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHH--hCchhHHHHH
Confidence            8  699999999998 44 2557788899999998874         358999999999 65  5676554443

>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=99.71  E-value=7.5e-15  Score=116.44  Aligned_cols=212  Identities=9%  Similarity=-0.100  Sum_probs=175.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ...|..+...+...|++++|...|+++.+..                            +.+...+..+...+...|+++
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~----------------------------~~~~~~~~~la~~~~~~~~~~   88 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID----------------------------PSSADAHAALAVVFQTEMEPK   88 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC----------------------------CChHHHHHHHHHHHHHcCCHH
Confidence            5677788888888888888888888877641                            335678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcC
Q 044256          180 VAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNG  258 (363)
Q Consensus       180 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~  258 (363)
                      +|...++++.+.. +.+...+..+...+...|++++|...++++..            .+..| +...+..+...+...|
T Consensus        89 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~------------~~~~~~~~~~~~~la~~~~~~g  155 (252)
T 2ho1_A           89 LADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQ------------DTLYPERSRVFENLGLVSLQMK  155 (252)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT------------CTTCTTHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHh------------CccCcccHHHHHHHHHHHHHcC
Confidence            9999999998874 33677888899999999999999988877654            11223 4567888889999999


Q ss_pred             CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHH
Q 044256          259 HVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLL  338 (363)
Q Consensus       259 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  338 (363)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++
T Consensus       156 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~  233 (252)
T 2ho1_A          156 KPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGL  233 (252)
T ss_dssp             CHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999999999998875 5568889999999999999999999999998864 5578888899999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHH
Q 044256          339 SMEENGCALDVDTFNTLM  356 (363)
Q Consensus       339 ~m~~~g~~p~~~~~~~ll  356 (363)
                      ++.+.  .|+...+..++
T Consensus       234 ~~~~~--~p~~~~~~~~l  249 (252)
T 2ho1_A          234 QLKRL--YPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHH--CTTSHHHHHHH
T ss_pred             HHHHH--CCCCHHHHHHH
Confidence            99984  56655554443

>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=99.71  E-value=7.3e-14  Score=112.19  Aligned_cols=226  Identities=11%  Similarity=-0.045  Sum_probs=151.5

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh----cCChhHHHHHHHHHHhccCCCCCcc
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR----TGNMNLTLKLHQEMVNGMGDFGGIY   96 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~   96 (363)
                      |.++.++..+...+...|++++|+..|++..+.   .+..++..+...+..    .+++++|...|++..+.+       
T Consensus         3 ~~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-------   72 (273)
T 1ouv_A            3 EQDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-------   72 (273)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-------
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC-------
Confidence            346778888888888888888888888888773   345667777778887    888888888888887632       


Q ss_pred             CCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 044256           97 KPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGY  172 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (363)
                        +...+..+...|..    .+++++|...|++..+.+                              +...+..+...|
T Consensus        73 --~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~------------------------------~~~a~~~lg~~~  120 (273)
T 1ouv_A           73 --YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK------------------------------YAEGCASLGGIY  120 (273)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT------------------------------CHHHHHHHHHHH
T ss_pred             --CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC------------------------------CccHHHHHHHHH
Confidence              46677777777777    777777777777766431                              345666677777


Q ss_pred             Hh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          173 CL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK----NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       173 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      ..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...+++..+.+               +.
T Consensus       121 ~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---------------~~  182 (273)
T 1ouv_A          121 HDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---------------DS  182 (273)
T ss_dssp             HHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------------CH
T ss_pred             HcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---------------CH
Confidence            77    777777777777777654   44555556666665    667777766666554331               33


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh----cCChHHHHHHHHHhhhCC
Q 044256          245 FTCNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK----FGIFEIASELFNKLSCKN  309 (363)
Q Consensus       245 ~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~  309 (363)
                      ..+..+...|..    .+++++|+..+++..+.+ +  ...+..+...|..    .+++++|.+.|++..+.+
T Consensus       183 ~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          183 PGCFNAGNMYHHGEGATKNFKEALARYSKACELE-N--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT-C--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC-C--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            455556666666    666777777666666554 1  4455556666666    666666666666666554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=2e-15  Score=119.01  Aligned_cols=201  Identities=8%  Similarity=-0.035  Sum_probs=99.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..|..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.+..       +.+..+
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~   93 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-------SSAATA   93 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------CcchHH
Confidence            44556666666666666677766666666542 3345556666666666666666666666666543       334556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      +..+...+...|++++|...++++.+..                            +.+...+..+...+...|++++|.
T Consensus        94 ~~~la~~~~~~~~~~~A~~~~~~~~~~~----------------------------~~~~~~~~~~a~~~~~~~~~~~A~  145 (243)
T 2q7f_A           94 YYGAGNVYVVKEMYKEAKDMFEKALRAG----------------------------MENGDLFYMLGTVLVKLEQPKLAL  145 (243)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT----------------------------CCSHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC----------------------------CCCHHHHHHHHHHHHHhccHHHHH
Confidence            6666666666666666666666655431                            123344555555666666666666


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHH
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  262 (363)
                      ..++++.+.. +.+...+..+...+...|++++|...++++....             +.+..++..+..++...|++++
T Consensus       146 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~la~~~~~~~~~~~  211 (243)
T 2q7f_A          146 PYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-------------PGHADAFYNAGVTYAYKENREK  211 (243)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------cccHHHHHHHHHHHHHccCHHH
Confidence            6666555542 2234455555555555555555555555444332             1233445555555555555555


Q ss_pred             HHHHHHHHHhc
Q 044256          263 VMELFPTLEIS  273 (363)
Q Consensus       263 a~~~~~~~~~~  273 (363)
                      |...++++.+.
T Consensus       212 A~~~~~~~~~~  222 (243)
T 2q7f_A          212 ALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHcc
Confidence            55555555544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.71  E-value=8.5e-15  Score=113.89  Aligned_cols=217  Identities=10%  Similarity=-0.053  Sum_probs=176.7

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 044256           97 KPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVG  176 (363)
Q Consensus        97 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (363)
                      +.+...+..+...+...|++++|...++++.+..                            +.+...+..+...+...|
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~----------------------------~~~~~~~~~l~~~~~~~~   56 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD----------------------------PKNELAWLVRAEIYQYLK   56 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC----------------------------ccchHHHHHHHHHHHHcC
Confidence            4557788899999999999999999999988642                            234567888999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc-CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHH
Q 044256          177 KVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN-FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLC  255 (363)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~  255 (363)
                      ++++|...++.+.+.. +.+..++..+...+... |++++|...++++...+           ..+.+...+..+..++.
T Consensus        57 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~  124 (225)
T 2vq2_A           57 VNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADP-----------TYPTPYIANLNKGICSA  124 (225)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTST-----------TCSCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCc-----------CCcchHHHHHHHHHHHH
Confidence            9999999999988763 34677888899999999 99999998887765410           11223567888889999


Q ss_pred             hcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHH
Q 044256          256 KNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       256 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  335 (363)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++++.......+...+..+...+...|+.++|..
T Consensus       125 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  203 (225)
T 2vq2_A          125 KQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYE  203 (225)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHH
Confidence            9999999999999998775 556888999999999999999999999999876421577788888888899999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHH
Q 044256          336 LLLSMEENGCALDVDTFNTLM  356 (363)
Q Consensus       336 ~~~~m~~~g~~p~~~~~~~ll  356 (363)
                      +++.+.+.  .|+......++
T Consensus       204 ~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          204 YEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHh--CCCCHHHHHHh
Confidence            99999873  56666555544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.70  E-value=6.8e-15  Score=125.51  Aligned_cols=289  Identities=13%  Similarity=0.026  Sum_probs=213.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-c----ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-V----TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      ....+..+...+...|++++|+..|+++.+.+  |+ .    ..|..+..++...|++++|...+++..+.....+. .+
T Consensus        47 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~  123 (411)
T 4a1s_A           47 MCLELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMND-RL  123 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccC-ch
Confidence            34456677788899999999999999999873  44 2    46788889999999999999999988764211000 13


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      ....++..+...+...|++++|...+++..+..                    ...  .+.+....++..+...|...|+
T Consensus       124 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------------~~~--~~~~~~~~~~~~l~~~~~~~g~  181 (411)
T 4a1s_A          124 GEAKSSGNLGNTLKVMGRFDEAAICCERHLTLA--------------------RQL--GDRLSEGRALYNLGNVYHAKGK  181 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------------HHH--TCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--------------------HHh--hchHHHHHHHHHHHHHHHHcCc
Confidence            346778889999999999999999999876531                    110  0001224577888889999999


Q ss_pred             -----------------HHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          178 -----------------VNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       178 -----------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                                       ++.|...+++..+.    +..+ ...++..+...|...|++++|...+++......     ..
T Consensus       182 ~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~-----~~  256 (411)
T 4a1s_A          182 HLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAR-----EF  256 (411)
T ss_dssp             HHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-----HH
T ss_pred             ccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH-----hc
Confidence                             99999988876542    2111 234777888889999999999999988765431     10


Q ss_pred             HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC--
Q 044256          236 KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK--  308 (363)
Q Consensus       236 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--  308 (363)
                        .........+..+...+...|++++|...+++......     .....++..+...|...|++++|...+++....  
T Consensus       257 --~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  334 (411)
T 4a1s_A          257 --GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQ  334 (411)
T ss_dssp             --TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             --CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              00001133778888999999999999999998875421     122567888999999999999999999988753  


Q ss_pred             --C-CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          309 --N-LVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       309 --~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                        + ......++..+..+|...|++++|...+++..+.
T Consensus       335 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          335 ELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence              1 1112457788889999999999999999998763

>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=99.70  E-value=1.5e-13  Score=110.32  Aligned_cols=224  Identities=9%  Similarity=-0.095  Sum_probs=186.8

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCc
Q 044256           58 NVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINA  133 (363)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~  133 (363)
                      +..++..+...+...|++++|...|++..+.         .+...+..+...+..    .+++++|...|++..+.    
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---------~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~----   71 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---------KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL----   71 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---------CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC----
Confidence            4566777888888889999999999988873         234677778888888    88888888888877653    


Q ss_pred             chhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 044256          134 NTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK  209 (363)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  209 (363)
                                             +   +...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..
T Consensus        72 -----------------------~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  122 (273)
T 1ouv_A           72 -----------------------N---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHD  122 (273)
T ss_dssp             -----------------------T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             -----------------------C---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHc
Confidence                                   2   45678888888988    999999999999998875   67888888889998


Q ss_pred             ----cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHH
Q 044256          210 ----NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEI  281 (363)
Q Consensus       210 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  281 (363)
                          .+++++|+..+++..+.+               +...+..+...|..    .+++++|+..|++..+.+   +...
T Consensus       123 ~~~~~~~~~~A~~~~~~a~~~~---------------~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a  184 (273)
T 1ouv_A          123 GKVVTRDFKKAVEYFTKACDLN---------------DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPG  184 (273)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHTT---------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             CCCcccCHHHHHHHHHHHHhcC---------------cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence                999999999888876542               45567778888887    899999999999998875   4567


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcC
Q 044256          282 FNSLIRGCCK----FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENG  344 (363)
Q Consensus       282 ~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  344 (363)
                      +..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|.+.|++..+.|
T Consensus       185 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          185 CFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            7888899999    999999999999999875   37778888888988    999999999999999865

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.70  E-value=4.1e-15  Score=117.22  Aligned_cols=200  Identities=14%  Similarity=0.051  Sum_probs=99.8

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhh
Q 044256           59 VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      ..+|..+...+...|++++|...|+++.+..       +.+...+..+...+...|++++|...+++..+..        
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------   87 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-------KEDAIPYINFANLLSSVNELERALAFYDKALELD--------   87 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------
Confidence            3445555666666666666666666666543       3445566666666666666666666666655431        


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                                          +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|..
T Consensus        88 --------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~  146 (243)
T 2q7f_A           88 --------------------SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALP  146 (243)
T ss_dssp             --------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             --------------------CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence                                1234455556666666666666666666655542 2244455555555566666666665


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHH
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      .++++....             +.+...+..+...+...|++++|...++++.... +.+..++..+..+|...|++++|
T Consensus       147 ~~~~~~~~~-------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  212 (243)
T 2q7f_A          147 YLQRAVELN-------------ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKA  212 (243)
T ss_dssp             HHHHHHHHC-------------TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHHHHHhC-------------CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHH
Confidence            555544332             1234445555555555555555555555555443 33344555555555555555555


Q ss_pred             HHHHHHhhhC
Q 044256          299 SELFNKLSCK  308 (363)
Q Consensus       299 ~~~~~~~~~~  308 (363)
                      ...++++.+.
T Consensus       213 ~~~~~~~~~~  222 (243)
T 2q7f_A          213 LEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHcc
Confidence            5555555543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.70  E-value=5.7e-15  Score=125.64  Aligned_cols=289  Identities=13%  Similarity=0.003  Sum_probs=212.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ....+......+...|++++|+..|+++.+.+ +.+    ..++..+...+...|++++|...+++........+. .+.
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~   85 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGD-QLG   85 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccc-cHH
Confidence            66678888999999999999999999999873 223    246788889999999999999999987654211000 122


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC-
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK-  177 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-  177 (363)
                      ...++..+...+...|++++|...+++..+...                    ..  ........++..+...|...|+ 
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~--------------------~~--~~~~~~~~~~~~l~~~~~~~g~~  143 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISR--------------------EL--NDKVGEARALYNLGNVYHAKGKS  143 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--------------------HH--TCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--------------------hc--ccccchHHHHHHHHHHHHHcCCc
Confidence            356788889999999999999999998775310                    00  0001123477788888889999 


Q ss_pred             -------------------HHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHH
Q 044256          178 -------------------VNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFN  233 (363)
Q Consensus       178 -------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  233 (363)
                                         ++.|...+++....    +..| ...++..+...|...|++++|...+++......     
T Consensus       144 ~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~-----  218 (406)
T 3sf4_A          144 FGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK-----  218 (406)
T ss_dssp             CC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHH-----
T ss_pred             ccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH-----
Confidence                               99999988876542    2111 234677888889999999999999988765421     


Q ss_pred             HhHhcCC-CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----Ccc-hHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          234 EMKLCNV-VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN----CEL-FVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       234 ~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                         ..+. .....++..+...+...|++++|...+++.....    ..+ ...++..+...|...|++++|...+++...
T Consensus       219 ---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          219 ---EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             ---HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence               1110 1123477888889999999999999999887542    111 156788889999999999999999998875


Q ss_pred             C----CCC-ccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          308 K----NLV-ADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       308 ~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .    +-. ....++..+..++...|++++|...+++..+.
T Consensus       296 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          296 IAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3    111 11557788888999999999999999987753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=7.1e-15  Score=121.57  Aligned_cols=288  Identities=14%  Similarity=0.019  Sum_probs=210.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN-----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      +...+......+...|++++|+..|+++.+..  |+     ...+..+...+...|++++|...+++..+.....+. .+
T Consensus         4 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~   80 (338)
T 3ro2_A            4 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGD-QL   80 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-HH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccc-cH
Confidence            34456667788899999999999999999873  44     356778889999999999999999987654210000 12


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC-CCchhhHHHHHHHHHhcC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL-NPVIFTYTPLLNGYCLVG  176 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~  176 (363)
                      ....++..+...+...|++++|...+++..+...                       ..+- .....++..+...+...|
T Consensus        81 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-----------------------~~~~~~~~~~~~~~l~~~~~~~~  137 (338)
T 3ro2_A           81 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISR-----------------------ELNDKVGEARALYNLGNVYHAKG  137 (338)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-----------------------HTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH-----------------------HhcCchHHHHHHHHHHHHHHHcC
Confidence            2356788889999999999999999998765311                       0000 011347777888888889


Q ss_pred             C--------------------HHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHH
Q 044256          177 K--------------------VNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKI  231 (363)
Q Consensus       177 ~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (363)
                      +                    ++.|...+++....    +..+ ...++..+...+...|++++|...+++......   
T Consensus       138 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~---  214 (338)
T 3ro2_A          138 KSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK---  214 (338)
T ss_dssp             HTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH---
T ss_pred             cccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH---
Confidence            9                    99999988876542    2111 234677788889999999999999988765421   


Q ss_pred             HHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----Cc-chHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          232 FNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN----CE-LFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                        ..  ........++..+...+...|++++|...+++.....    .+ ....++..+...+...|++++|...+++..
T Consensus       215 --~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  290 (338)
T 3ro2_A          215 --EF--GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  290 (338)
T ss_dssp             --HH--TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             --hc--CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence              10  0001123477888889999999999999999886542    11 125677888999999999999999999886


Q ss_pred             hC----CC-CccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          307 CK----NL-VADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       307 ~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..    +. .....++..+...+.+.|++++|...+++..+.
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          291 AIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            53    11 112457778889999999999999999999874

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.68  E-value=1.1e-14  Score=124.25  Aligned_cols=276  Identities=13%  Similarity=0.011  Sum_probs=202.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CC-CCCcccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLND----VTFNSLIKGFCMEGNIRDASQLVKKMATF----GC-RPNVTTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~l~~~~~~   71 (363)
                      .|++++|+..|+.+.+.  .|.+.    .+|..+...+...|++++|+..|++..+.    +- +....++..+...+..
T Consensus        61 ~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  138 (411)
T 4a1s_A           61 AGDCRAGVAFFQAAIQA--GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKV  138 (411)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHHh--cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHH
Confidence            47899999999999987  55344    57889999999999999999999988654    11 1234567888899999


Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC-----------------HHHHHHHHHHHHHcCCCcc
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL-----------------VDQTKDLFMEMKDKGINAN  134 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~~~~~~~~~  134 (363)
                      .|++++|...+++..+.....+. .+....++..+...+...|+                 +++|...+++..+.     
T Consensus       139 ~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~-----  212 (411)
T 4a1s_A          139 MGRFDEAAICCERHLTLARQLGD-RLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL-----  212 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhc-hHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH-----
Confidence            99999999999988775211000 12235578888899999999                 77777776665432     


Q ss_pred             hhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-Cc----HhHHHHHHHHHHh
Q 044256          135 TLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM-PD----VFSYSVLINGYCK  209 (363)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~  209 (363)
                                     .....  ..+....++..+...+...|++++|...+++..+.... ++    ..++..+...|..
T Consensus       213 ---------------~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  275 (411)
T 4a1s_A          213 ---------------MRDLG--DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIF  275 (411)
T ss_dssp             ---------------HHHHT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHT
T ss_pred             ---------------HHHcC--CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence                           11110  00112457788889999999999999999987654100 11    2377888889999


Q ss_pred             cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-----CcchHHHHHH
Q 044256          210 NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN-----CELFVEIFNS  284 (363)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~  284 (363)
                      .|++++|...+++......     ..  ........++..+...+...|++++|...+++.....     ......++..
T Consensus       276 ~g~~~~A~~~~~~al~~~~-----~~--~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  348 (411)
T 4a1s_A          276 LGQFEDAAEHYKRTLALAV-----EL--GEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWS  348 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHH-----HT--TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHH-----Hc--CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            9999999999988765431     11  0001124577888899999999999999999987542     1122457888


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhC
Q 044256          285 LIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       285 li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      +...|...|++++|...+++..+.
T Consensus       349 la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          349 LGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHH
Confidence            999999999999999999998865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.67  E-value=5.8e-15  Score=125.60  Aligned_cols=297  Identities=13%  Similarity=0.013  Sum_probs=213.8

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CcccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLN----DVTFNSLIKGFCMEGNIRDASQLVKKMATF----GCRP-NVTTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~   71 (363)
                      .|++++|...|+.+.+.  .|.+    ..+|..+...+...|++++|...+++....    +-.| ...++..+...+..
T Consensus        22 ~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~   99 (406)
T 3sf4_A           22 SGDCRAGVSFFEAAVQV--GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKV   99 (406)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHH
Confidence            48899999999999987  5534    367889999999999999999999987543    1111 24467888899999


Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHcCC
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL--------------------VDQTKDLFMEMKDKGI  131 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~~~~  131 (363)
                      .|++++|...+++..+.....+. ......++..+...+...|+                    +++|...+++..+.  
T Consensus       100 ~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~--  176 (406)
T 3sf4_A          100 LGNFDEAIVCCQRHLDISRELND-KVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSL--  176 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHH--
T ss_pred             cCCHHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH--
Confidence            99999999999988775311000 01114478888888999999                    77777777665532  


Q ss_pred             CcchhhhccCChHHHHHHHHHHHHcCC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHH
Q 044256          132 NANTLLCKKTKLVEANRLLELMMQRGL-NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMP-DVFSYSVLIN  205 (363)
Q Consensus       132 ~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~  205 (363)
                                        ..   ..+. +....++..+...+...|++++|...+++..+.    +..+ ...++..+..
T Consensus       177 ------------------~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  235 (406)
T 3sf4_A          177 ------------------VT---ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGN  235 (406)
T ss_dssp             ------------------HH---HTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------------HH---hccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence                              11   1111 112457888889999999999999999987654    1111 1237788888


Q ss_pred             HHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----cchH
Q 044256          206 GYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC-----ELFV  279 (363)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~  279 (363)
                      .|...|++++|...+++......        ..+..+ ...++..+...+...|++++|...+++......     ....
T Consensus       236 ~~~~~g~~~~A~~~~~~al~~~~--------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  307 (406)
T 3sf4_A          236 AYIFLGEFETASEYYKKTLLLAR--------QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEG  307 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHH--------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHHHHH--------hCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHH
Confidence            99999999999999988765331        111111 145778888999999999999999999875421     1125


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhC----CC-CccHHHHHHHHHHHHccCChh
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCK----NL-VADVVAYNILIHALGKEGQIK  331 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~  331 (363)
                      .++..+...|...|++++|...+++..+.    +. .....++..+...+...|+..
T Consensus       308 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          308 RACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            67888999999999999999999987643    21 123456777777887777663

>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=99.65  E-value=1.4e-12  Score=121.20  Aligned_cols=312  Identities=13%  Similarity=0.131  Sum_probs=182.8

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |.+++|..+|++..    .  .....+.++.   ..+++++|.++.++..      +..+|..+..++...|++++|.+.
T Consensus      1063 glyEEAf~IYkKa~----~--~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIds 1127 (1630)
T 1xi4_A         1063 ELFEEAFAIFRKFD----V--NTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDS 1127 (1630)
T ss_pred             CCHHHHHHHHHHcC----C--HHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHH
Confidence            56677777776652    1  2233333332   4556666666665442      344566666666666666666666


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc------hhhhccCChHHHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINAN------TLLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~~~~~a~~~~~~~~~  155 (363)
                      |.+.            .|...|..++.++.+.|++++|.+.|....+....+.      ..+.+.+++++...++    +
T Consensus      1128 YiKA------------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI----~ 1191 (1630)
T 1xi4_A         1128 YIKA------------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI----N 1191 (1630)
T ss_pred             HHhc------------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH----h
Confidence            6332            2345566666666666666666666665554432211      1444555555433222    1


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHH-----
Q 044256          156 RGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKK-----  230 (363)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----  230 (363)
                         .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.+++......+.     
T Consensus      1192 ---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~a 1259 (1630)
T 1xi4_A         1192 ---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFA 1259 (1630)
T ss_pred             ---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHH
Confidence               234445555666666666666666666653         246666666666666666666665553221100     


Q ss_pred             H-----HHHhHhc--CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc--CChHHHHHH
Q 044256          231 I-----FNEMKLC--NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF--GIFEIASEL  301 (363)
Q Consensus       231 ~-----~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--~~~~~a~~~  301 (363)
                      .     |+.....  ++..++..+..++..|.+.|.+++|+.+++...... +-+...|+-|...|++.  ++..++.++
T Consensus      1260 cve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             HhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            0     1111111  234566678889999999999999999999888766 56677887777777764  345555555


Q ss_pred             HHHhhhCCCCc------cHHHHHHHHHHHHccCChhHHHHH-------------HHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          302 FNKLSCKNLVA------DVVAYNILIHALGKEGQIKKENYL-------------LLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       302 ~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~-------------~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      |..-..  ++|      +...|..++..|.+.|+++.|...             |++.+.  ...|...|...+.-|..
T Consensus      1339 f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~--kv~n~elyykai~Fyl~ 1413 (1630)
T 1xi4_A         1339 FWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT--KVANVELYYRAIQFYLE 1413 (1630)
T ss_pred             HHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhc--ccccHHHHHHHHHHHHh
Confidence            554322  222      567899999999999999999832             222222  24456666666665543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.65  E-value=2.8e-14  Score=118.02  Aligned_cols=275  Identities=13%  Similarity=0.024  Sum_probs=200.0

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CcccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLN----DVTFNSLIKGFCMEGNIRDASQLVKKMATF----GCRP-NVTTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~   71 (363)
                      .|++++|...|+.+.+.  .|.+    ..++..+...+...|++++|...+++....    +..| ...++..+...+..
T Consensus        18 ~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~   95 (338)
T 3ro2_A           18 SGDCRAGVSFFEAAVQV--GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKV   95 (338)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHH
Confidence            48899999999999987  5534    467889999999999999999999987643    1111 24567888899999


Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHcCC
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL--------------------VDQTKDLFMEMKDKGI  131 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~~~~  131 (363)
                      .|++++|...+++..+.....+. ......++..+...+...|+                    +++|...+++..+.  
T Consensus        96 ~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~--  172 (338)
T 3ro2_A           96 LGNFDEAIVCCQRHLDISRELND-KVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSL--  172 (338)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHH--
T ss_pred             ccCHHHHHHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH--
Confidence            99999999999998765311000 01114478888888988888                    77777777665431  


Q ss_pred             CcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CcHhHHHHHHHH
Q 044256          132 NANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFM-PDVFSYSVLING  206 (363)
Q Consensus       132 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~  206 (363)
                                        .....  ..+....++..+...+...|++++|...+++..+.    +.. ....++..+...
T Consensus       173 ------------------~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  232 (338)
T 3ro2_A          173 ------------------VTALG--DRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNA  232 (338)
T ss_dssp             ------------------HHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ------------------HHhcC--CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence                              11110  00112457788889999999999999999987653    111 112377788888


Q ss_pred             HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-----CcchHH
Q 044256          207 YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV-PETFTCNIFIDGLCKNGHVLEVMELFPTLEISN-----CELFVE  280 (363)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~  280 (363)
                      +...|++++|...+++......        ..+.. ....++..+...+...|++++|...+++.....     ......
T Consensus       233 ~~~~g~~~~A~~~~~~al~~~~--------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  304 (338)
T 3ro2_A          233 YIFLGEFETASEYYKKTLLLAR--------QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  304 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHH--------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHH--------hhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence            9999999999999988764321        11111 124567788889999999999999999886542     112245


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          281 IFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       281 ~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      ++..+...|...|++++|...+++..+.
T Consensus       305 ~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          305 ACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            7788999999999999999999998865

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.65  E-value=6.7e-13  Score=108.46  Aligned_cols=236  Identities=9%  Similarity=-0.015  Sum_probs=177.2

Q ss_pred             chhhHHHHHHHHHhc----CCH----HHHHHHHHHHHhcCCCCCcccHHHHHHHHH-------hcCCh-------hHHHH
Q 044256           23 NDVTFNSLIKGFCME----GNI----RDASQLVKKMATFGCRPNVTTCDTLITGLR-------RTGNM-------NLTLK   80 (363)
Q Consensus        23 ~~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~   80 (363)
                      +...|...+....+.    ++.    ++|..+|++.+... +.+...|..++..+.       +.|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            445666666655443    233    78889999998763 456678888877775       35776       89999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      +|++.++.-      .+.+...|..++..+.+.|++++|..+|++..+.                             .|
T Consensus        86 ~~~rAl~~~------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~-----------------------------~p  130 (308)
T 2ond_A           86 IYERAISTL------LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI-----------------------------ED  130 (308)
T ss_dssp             HHHHHHTTT------TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS-----------------------------SS
T ss_pred             HHHHHHHHh------CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----------------------------cc
Confidence            999999842      1446678999999999999999999999998864                             23


Q ss_pred             c-hh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHH-HhcCChhHHHHHHHHHHHhhHHHHHHHhHh
Q 044256          161 V-IF-TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGY-CKNFNVEEAMNVSREMILNGFKKIFNEMKL  237 (363)
Q Consensus       161 ~-~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (363)
                      + .. +|..++..+.+.|++++|..+|++..+.. +++...|....... ...|++++|..+|++.++..          
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~----------  199 (308)
T 2ond_A          131 IDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY----------  199 (308)
T ss_dssp             SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH----------
T ss_pred             cCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------
Confidence            2 33 78888899999999999999999998763 23344444333322 23689999998888877654          


Q ss_pred             cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-Ccc--hHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          238 CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN-CEL--FVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       238 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                         +.+...|..++..+.+.|++++|..+|++..... ++|  ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       200 ---p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          200 ---GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             ---TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               2356778888888888899999999999988763 344  3567888888888889999999998888765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=9.7e-14  Score=104.38  Aligned_cols=174  Identities=11%  Similarity=0.052  Sum_probs=150.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      +..+|..+...|...|++++|+..|++..+.. +-+..++..+..+|.+.|++++|...+.......             
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-------------   69 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-------------   69 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------------
Confidence            56789999999999999999999999998874 3367788999999999999999999888876654             


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                      +.+...+..+...+...++++.|...+.+..... +.+...+..+...|.+.|++++|.+.|++..+.. +.+..+|..+
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l  147 (184)
T 3vtx_A           70 TTSAEAYYILGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSI  147 (184)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHH
Confidence            2355677777888899999999999999998875 6678899999999999999999999999999875 5578899999


Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCCHHHH
Q 044256          321 IHALGKEGQIKKENYLLLSMEENGCALDVDTF  352 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  352 (363)
                      ..++.+.|++++|.+.|++.++  +.|+...|
T Consensus       148 g~~~~~~g~~~~A~~~~~~al~--~~p~~a~~  177 (184)
T 3vtx_A          148 GLAYEGKGLRDEAVKYFKKALE--KEEKKAKY  177 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--TTHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh--CCccCHHH
Confidence            9999999999999999999998  56765443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.64  E-value=6.6e-13  Score=108.52  Aligned_cols=218  Identities=6%  Similarity=-0.092  Sum_probs=171.3

Q ss_pred             hHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh-------cCCH-------HHHHHHHHHHHHcCCCcchhhhccC
Q 044256           76 NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK-------DRLV-------DQTKDLFMEMKDKGINANTLLCKKT  141 (363)
Q Consensus        76 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~~  141 (363)
                      ++|..+|++++...       +.+...|..++..+..       .|++       ++|..+|++..+.            
T Consensus        33 ~~a~~~~~~al~~~-------p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~------------   93 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-------GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST------------   93 (308)
T ss_dssp             HHHHHHHHHHHHHH-------TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT------------
T ss_pred             HHHHHHHHHHHHHc-------CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH------------
Confidence            68889999999864       6678889888887764       3554       5555555555431            


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-Hh-HHHHHHHHHHhcCChhHHHHH
Q 044256          142 KLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD-VF-SYSVLINGYCKNFNVEEAMNV  219 (363)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~  219 (363)
                                    .. +-+...|..++..+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+
T Consensus        94 --------------~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~  156 (308)
T 2ond_A           94 --------------LL-KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             --------------TT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             --------------hC-cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHH
Confidence                          11 234568999999999999999999999999985  443 33 799999999999999999988


Q ss_pred             HHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHH-hcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHH
Q 044256          220 SREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLC-KNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  298 (363)
                      |++.++..             +++...|........ ..|++++|..+|++..+.. +.+...|..++..+.+.|++++|
T Consensus       157 ~~~a~~~~-------------p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A  222 (308)
T 2ond_A          157 FKKAREDA-------------RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNT  222 (308)
T ss_dssp             HHHHHTST-------------TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHhcC-------------CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            88876543             234445544433322 3699999999999998774 56788999999999999999999


Q ss_pred             HHHHHHhhhCC-CCc--cHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          299 SELFNKLSCKN-LVA--DVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       299 ~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+|++..... ++|  ....|..++....+.|+.++|..+++++.+.
T Consensus       223 ~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          223 RVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999863 354  4778999999999999999999999999884

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.63  E-value=1.4e-13  Score=116.15  Aligned_cols=308  Identities=7%  Similarity=-0.104  Sum_probs=211.2

Q ss_pred             ChhhhhHHHHHHHHHHcC--CCC-CchhhHHHHHHHH--HhcCCHHHHH-----------HHHHHHHhcCCCCCcccH--
Q 044256            1 TSKVLGALMAFGSFIRRC--YRP-LNDVTFNSLIKGF--CMEGNIRDAS-----------QLVKKMATFGCRPNVTTC--   62 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~--~~p-~~~~~~~~li~~~--~~~~~~~~a~-----------~~~~~m~~~~~~~~~~~~--   62 (363)
                      .+++++|..+++.+.+.-  ..+ .+...|..++..-  ...++++.+.           +.++.+...  +++...+  
T Consensus        25 ~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~--~~~~~~~l~  102 (383)
T 3ulq_A           25 RFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKK--QARLTGLLE  102 (383)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHH--THHHHHHHH
T ss_pred             HcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhc--CCCchhHHH
Confidence            468899999999987642  112 1344445554432  2234445555           677776543  1121222  


Q ss_pred             ----HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhh
Q 044256           63 ----DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLL  137 (363)
Q Consensus        63 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  137 (363)
                          ......+...|++++|...|++..+.....+  -++ ...++..+..++...|+++.|...+++..+.....    
T Consensus       103 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~--~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~----  176 (383)
T 3ulq_A          103 YYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVK--DRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEH----  176 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCC--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCC--CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC----
Confidence                2256677889999999999999987531100  011 35688899999999999999999999877531100    


Q ss_pred             hccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCC
Q 044256          138 CKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFN  212 (363)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~  212 (363)
                         ++.              .+....+++.+...|...|++++|...+++..+.    +..+ ...++..+...|...|+
T Consensus       177 ---~~~--------------~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~  239 (383)
T 3ulq_A          177 ---EAY--------------NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQ  239 (383)
T ss_dssp             ---STT--------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             ---ccc--------------hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCC
Confidence               000              0112457888899999999999999999987654    1111 12477888899999999


Q ss_pred             hhHHHHHHHHHHHhhHHHHHHHhHhcCC-CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----CcchHHHHHHHHH
Q 044256          213 VEEAMNVSREMILNGFKKIFNEMKLCNV-VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN----CELFVEIFNSLIR  287 (363)
Q Consensus       213 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li~  287 (363)
                      +++|...+++.....        ...+. +....++..+...+...|++++|...+++.....    -+.....+..+..
T Consensus       240 ~~~A~~~~~~al~~~--------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~  311 (383)
T 3ulq_A          240 YEDAIPYFKRAIAVF--------EESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKS  311 (383)
T ss_dssp             HHHHHHHHHHHHHHH--------HHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--------HhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999998876421        12222 2335678889999999999999999999987542    1222334677888


Q ss_pred             HHHhcCC---hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          288 GCCKFGI---FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       288 ~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .+...|+   +++|..++++....  +.....+..+...|...|++++|...+++..+.
T Consensus       312 ~~~~~~~~~~~~~al~~~~~~~~~--~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          312 LYLSGPDEEAIQGFFDFLESKMLY--ADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHTSSCCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCcHHHHHHHHHHHHHCcCH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8889999   77788887776321  233456778888999999999999999998763

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.63  E-value=3.8e-14  Score=122.77  Aligned_cols=216  Identities=10%  Similarity=-0.084  Sum_probs=179.1

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNI-RDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      +++++++.++.....  .|.+...|..+...+...|++ ++|+..|++..+.. +.+...|..+..+|...|++++|...
T Consensus        83 ~~~~al~~l~~~~~~--~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           83 EMEKTLQQMEEVLGS--AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHTT--CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc--CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            466777778776664  566889999999999999999 99999999999874 34577899999999999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKD---------RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLEL  152 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  152 (363)
                      |++..+        ..|+...+..+..++...         |++++|...|++..+..                      
T Consensus       160 ~~~al~--------~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~----------------------  209 (474)
T 4abn_A          160 FSGALT--------HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD----------------------  209 (474)
T ss_dssp             HHHHHT--------TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHHh--------hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC----------------------
Confidence            999998        457778899999999998         88888888888877642                      


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhc--------CCHHHHHHHHHHHHHcCCC--CcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          153 MMQRGLNPVIFTYTPLLNGYCLV--------GKVNVAIALFDSMARKGFM--PDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~--------~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                            +.+...|..+..+|...        |++++|+..|++..+....  .+...|..+..+|...|++++|...+++
T Consensus       210 ------p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  283 (474)
T 4abn_A          210 ------VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQ  283 (474)
T ss_dssp             ------TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  33467888888888888        9999999999999886310  3778899999999999999999999998


Q ss_pred             HHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256          223 MILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTL  270 (363)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  270 (363)
                      ..+..             +.+...+..+..++...|++++|++.+.++
T Consensus       284 al~l~-------------p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          284 AAALD-------------PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHC-------------TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhC-------------CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            87654             234567888888888899999988866554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=2.5e-13  Score=116.93  Aligned_cols=301  Identities=11%  Similarity=-0.023  Sum_probs=131.7

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCH---HHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-----
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNI---RDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-----   73 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-----   73 (363)
                      |++++|.+.|+...+.|    ++.++..+...|...|+.   ++|+.+|++..+.    +...+..|...+...+     
T Consensus        17 g~~~~A~~~~~~aa~~g----~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~   88 (452)
T 3e4b_A           17 GDTVTAQQNYQQLAELG----YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEA   88 (452)
T ss_dssp             HHHHHHHHHHHHHHHHT----CCTGGGTCC--------------------------------CHHHHHHHHHTC--CCHH
T ss_pred             CCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCc
Confidence            78999999999988763    445666777777778888   8999999888753    5566777777555554     


Q ss_pred             ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHH---HHHHHHHHHHHcCCCcch-----hhhccCChHH
Q 044256           74 NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVD---QTKDLFMEMKDKGINANT-----LLCKKTKLVE  145 (363)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~-----~~~~~~~~~~  145 (363)
                      +.++|...|++..+.+       .  ...+..|...|...+..+   .+.+.+......+.....     .+...+.+++
T Consensus        89 ~~~~A~~~~~~Aa~~g-------~--~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           89 EHHEAESLLKKAFANG-------E--GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             HHHHHHHHHHHHHHTT-------C--SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGG
T ss_pred             CHHHHHHHHHHHHHCC-------C--HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCccc
Confidence            6788999999888755       2  225556666665544322   233333333333321111     2223332222


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc----CChhHHHH
Q 044256          146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVG---KVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN----FNVEEAMN  218 (363)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~  218 (363)
                      +......+.+.-...+...+..|...|...|   +.++|+..|+...+.|. ++...+..+...|...    +++++|..
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            2222111111111112224555555555555   55555555555555542 2333333344444332    45555555


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHH-H--HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC--
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG-L--CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG--  293 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--  293 (363)
                      .|++.. .               .+...+..+... +  ...+++++|+..|++..+.|   ++..+..|...|. .|  
T Consensus       239 ~~~~aa-~---------------g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g  298 (452)
T 3e4b_A          239 LLEKIA-P---------------GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKW  298 (452)
T ss_dssp             HHHHHG-G---------------GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSS
T ss_pred             HHHHHc-C---------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCC
Confidence            544433 1               122333333333 2  23455555555555555443   2333444444443 23  


Q ss_pred             ---ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcC
Q 044256          294 ---IFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENG  344 (363)
Q Consensus       294 ---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  344 (363)
                         ++++|.+.|++.. .|   ++..+..+...|..    ..++++|..+|++..+.|
T Consensus       299 ~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          299 VPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             SCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence               5555555555544 22   33444444444433    224555555555544433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=2.7e-14  Score=116.87  Aligned_cols=262  Identities=14%  Similarity=0.030  Sum_probs=165.2

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCC
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF-------GCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDF   92 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   92 (363)
                      .|.+..++..+...+...|++++|..+|+++.+.       ..+....++..+..++...|++++|...++++.......
T Consensus        23 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           23 IPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            3446778999999999999999999999998873       223345578889999999999999999999988742000


Q ss_pred             -CCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 044256           93 -GGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNG  171 (363)
Q Consensus        93 -~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  171 (363)
                       +...+....++..+...+...|++++|...+++..+.                    .........+.....+..+...
T Consensus       103 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--------------------~~~~~~~~~~~~~~~~~~la~~  162 (311)
T 3nf1_A          103 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEI--------------------REKVLGKDHPDVAKQLNNLALL  162 (311)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--------------------HHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--------------------HHHhcCCCChHHHHHHHHHHHH
Confidence             0001334678889999999999999999999988753                    1111111112235678888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHc------CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          172 YCLVGKVNVAIALFDSMARK------GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      +...|++++|..+++++.+.      +..| ...++..+...|...|++++|...++++.......-+.     ...+..
T Consensus       163 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----~~~~~~  237 (311)
T 3nf1_A          163 CQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFG-----SVDDEN  237 (311)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCC-----CCCcch
Confidence            99999999999999988764      2223 34577888899999999999999999887543111000     011111


Q ss_pred             H-------HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          245 F-------TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       245 ~-------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      .       .+..+...+...+.+.++...++...... +.+..++..+..+|.+.|++++|.+.|++..+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1       11112222223334444444454444332 33445555666666666666666666665543

>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=99.61  E-value=4.7e-12  Score=117.78  Aligned_cols=251  Identities=10%  Similarity=0.102  Sum_probs=179.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHH
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSL  106 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  106 (363)
                      ...+...+...|.+++|..+|++..    . .....+.++.   ..+++++|.++.++..            +..+|..+
T Consensus      1052 ~~eIA~Iai~lglyEEAf~IYkKa~----~-~~~A~~VLie---~i~nldrAiE~Aervn------------~p~vWsqL 1111 (1630)
T 1xi4_A         1052 APDIANIAISNELFEEAFAIFRKFD----V-NTSAVQVLIE---HIGNLDRAYEFAERCN------------EPAVWSQL 1111 (1630)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcC----C-HHHHHHHHHH---HHhhHHHHHHHHHhcC------------CHHHHHHH
Confidence            3447788899999999999999963    1 1122233332   7789999999988553            26789999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 044256          107 IDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNV  180 (363)
Q Consensus       107 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  180 (363)
                      ..++...|++++|.+.|.+..    .++.      .+.+.|++++|.+++...++..  ++....+.++.+|++.++++.
T Consensus      1112 AKAql~~G~~kEAIdsYiKAd----D~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rlee 1185 (1630)
T 1xi4_A         1112 AKAQLQKGMVKEAIDSYIKAD----DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAE 1185 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHhcC----ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHH
Confidence            999999999999999996641    2222      7789999999999999888765  343344569999999999886


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          181 AIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       181 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      ...+.    +   .++...|..+...|...|++++|..+|..+                     ..|..+...+.+.|++
T Consensus      1186 le~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------------------~ny~rLA~tLvkLge~ 1237 (1630)
T 1xi4_A         1186 LEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------------------SNFGRLASTLVHLGEY 1237 (1630)
T ss_pred             HHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------------------hHHHHHHHHHHHhCCH
Confidence            44442    2   346677778999999999999999887753                     2688888888888999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHH
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSM  340 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  340 (363)
                      ++|.+.+++..      +..+|..+..+|...|++..|......+     ..++..+..++..|.+.|.+++|+++++..
T Consensus      1238 q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~a 1306 (1630)
T 1xi4_A         1238 QAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAA 1306 (1630)
T ss_pred             HHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99888888763      3456665666666666666555544432     224445555566666666666666666555


Q ss_pred             HH
Q 044256          341 EE  342 (363)
Q Consensus       341 ~~  342 (363)
                      +.
T Consensus      1307 L~ 1308 (1630)
T 1xi4_A         1307 LG 1308 (1630)
T ss_pred             hc
Confidence            43

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.61  E-value=8.1e-14  Score=120.73  Aligned_cols=218  Identities=11%  Similarity=-0.085  Sum_probs=177.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCCh-hHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHH
Q 044256           39 NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNM-NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVD  117 (363)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  117 (363)
                      .+++++..++...... +.+...+..+..++...|++ ++|+..|++..+..       +.+...|..+..+|.+.|+++
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-------p~~~~a~~~lg~~~~~~g~~~  154 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-------PELVEAWNQLGEVYWKKGDVT  154 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-------CCCHHHHHHHHHHHHHcCCHH
Confidence            3566777777666542 34667788888899999999 99999999998864       456788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---------CCHHHHHHHHHHH
Q 044256          118 QTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLV---------GKVNVAIALFDSM  188 (363)
Q Consensus       118 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~~  188 (363)
                      +|...|++..+.                             .|+...+..+...+...         |++++|+..|++.
T Consensus       155 ~A~~~~~~al~~-----------------------------~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~a  205 (474)
T 4abn_A          155 SAHTCFSGALTH-----------------------------CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLA  205 (474)
T ss_dssp             HHHHHHHHHHTT-----------------------------CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh-----------------------------CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHH
Confidence            999999888764                             45567888889999999         9999999999999


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhc--------CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCH
Q 044256          189 ARKGFMPDVFSYSVLINGYCKN--------FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       189 ~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  260 (363)
                      .+.. +.+...|..+..+|...        |++++|+..+++..+...          ....+...|..+..+|...|++
T Consensus       206 l~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~~~~lg~~~~~~g~~  274 (474)
T 4abn_A          206 VQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDR----------KASSNPDLHLNRATLHKYEESY  274 (474)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCG----------GGGGCHHHHHHHHHHHHHTTCH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCC----------CcccCHHHHHHHHHHHHHcCCH
Confidence            8874 33678888999999888        999999999988876530          0003677889999999999999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKL  305 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  305 (363)
                      ++|.+.|++..+.. +.+...+..+..++...|++++|.+.+.++
T Consensus       275 ~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          275 GEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999998875 666778888999999999999988766544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.60  E-value=3.2e-13  Score=114.08  Aligned_cols=245  Identities=7%  Similarity=-0.063  Sum_probs=180.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcC-CCCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           30 LIKGFCMEGNIRDASQLVKKMATFG-CRPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        30 li~~~~~~~~~~~a~~~~~~m~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ....+...|++++|+..|++..+.- -.++    ..++..+..++...|+++.|...+++..+.....+...+....+++
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            6667788999999999999987641 0122    3578889999999999999999999988754221110112245788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC-CCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL-NPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      .+..+|...|++++|...+++..+...                       +.+- +....++..+...|...|++++|+.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~-----------------------~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~  245 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAE-----------------------AEKQPQLMGRTLYNIGLCKNSQSQYEDAIP  245 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-----------------------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHH-----------------------HcCChHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            899999999999999999998875310                       0110 1113478889999999999999999


Q ss_pred             HHHHHHHc----CC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC
Q 044256          184 LFDSMARK----GF-MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG  258 (363)
Q Consensus       184 ~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  258 (363)
                      .+++..+.    +. +....++..+...|.+.|++++|...+++.....     .   ..+-+.....+..+...+...|
T Consensus       246 ~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-----~---~~~~~~~~~~~~~l~~~~~~~~  317 (383)
T 3ulq_A          246 YFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYS-----Q---KAGDVIYLSEFEFLKSLYLSGP  317 (383)
T ss_dssp             HHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----H---HHTCHHHHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-----H---HcCCHHHHHHHHHHHHHHhCCC
Confidence            99988762    23 3345678889999999999999999998876532     1   1111112233566778888888


Q ss_pred             C---HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          259 H---VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       259 ~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      +   .++|+.++++...  .+.....+..+...|...|++++|...+++...
T Consensus       318 ~~~~~~~al~~~~~~~~--~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          318 DEEAIQGFFDFLESKML--YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCcC--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8   7788888877622  133456778899999999999999999998865

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=4.3e-13  Score=109.65  Aligned_cols=222  Identities=13%  Similarity=-0.006  Sum_probs=168.9

Q ss_pred             cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 044256           96 YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLV  175 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (363)
                      .+.+..++..+...+...|++++|..+++++.+.                    .........+....++..+...|...
T Consensus        23 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--------------------~~~~~~~~~~~~~~~~~~la~~~~~~   82 (311)
T 3nf1_A           23 IPARLRTLHNLVIQYASQGRYEVAVPLCKQALED--------------------LEKTSGHDHPDVATMLNILALVYRDQ   82 (311)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------HHHHHCSSSHHHHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--------------------HHHHcCCCCHHHHHHHHHHHHHHHHC
Confidence            3445778899999999999999999999988752                    11111011123456788899999999


Q ss_pred             CCHHHHHHHHHHHHHc------CC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH
Q 044256          176 GKVNVAIALFDSMARK------GF-MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN  248 (363)
Q Consensus       176 ~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (363)
                      |++++|...+++....      +. +....++..+...|...|++++|...++++....     ........+.....+.
T Consensus        83 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-----~~~~~~~~~~~~~~~~  157 (311)
T 3nf1_A           83 NKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIR-----EKVLGKDHPDVAKQLN  157 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH-----HHHHCTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHH-----HHhcCCCChHHHHHHH
Confidence            9999999999988764      22 2245678888899999999999999998876432     2211111123455788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc------c-CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC-------------
Q 044256          249 IFIDGLCKNGHVLEVMELFPTLEIS------N-CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK-------------  308 (363)
Q Consensus       249 ~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------------  308 (363)
                      .+...+...|++++|...++++...      + .+....++..+...|...|++++|...++++...             
T Consensus       158 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  237 (311)
T 3nf1_A          158 NLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDEN  237 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcch
Confidence            8889999999999999999998765      1 2344567889999999999999999999988752             


Q ss_pred             -----------------------------------CCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          309 -----------------------------------NLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       309 -----------------------------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                                                         ..+.+..++..+..+|.+.|++++|.+.|++..+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                               1133456788889999999999999999999876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.58  E-value=7.9e-13  Score=99.36  Aligned_cols=168  Identities=14%  Similarity=0.011  Sum_probs=144.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ++.+|..+...+.+.|++++|+..|++.++.. +-+..+|..+..++.+.|++++|...+.......       +.+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~   75 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-------TTSAEA   75 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------CCCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------chhHHH
Confidence            67899999999999999999999999999874 4467788999999999999999999999998864       556778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      +..+...+...++++.|...+.+..+..                            +.+...+..+...+.+.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~----------------------------~~~~~~~~~lg~~~~~~g~~~~A~  127 (184)
T 3vtx_A           76 YYILGSANFMIDEKQAAIDALQRAIALN----------------------------TVYADAYYKLGLVYDSMGEHDKAI  127 (184)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------------------ccchHHHHHHHHHHHHhCCchhHH
Confidence            8888888999999999999998887642                            334667888899999999999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                      ..|++..+.. +.+..+|..+..+|.+.|++++|...|++.++.+
T Consensus       128 ~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  171 (184)
T 3vtx_A          128 EAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            9999988874 3467788999999999999999999999887654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.56  E-value=5.6e-12  Score=108.51  Aligned_cols=297  Identities=12%  Similarity=-0.046  Sum_probs=174.8

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC-----CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhH-
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG-----NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNL-   77 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~-   77 (363)
                      +++|...|+...+.     ++..+..+...+...+     ++++|+..|++..+.|   +...+..|...|...+.... 
T Consensus        54 ~~~A~~~~~~A~~~-----~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~~~~~~~~  125 (452)
T 3e4b_A           54 IKQAEATYRAAADT-----SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANG---EGNTLIPLAMLYLQYPHSFPN  125 (452)
T ss_dssp             ----------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTT---CSSCHHHHHHHHHHCGGGCTT
T ss_pred             HHHHHHHHHHHHhC-----CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHhCCCCCCC
Confidence            38888888888753     5567777777555555     7889999999988865   33367777777776655433 


Q ss_pred             --HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCcch------hhhccC---ChH
Q 044256           78 --TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG--INANT------LLCKKT---KLV  144 (363)
Q Consensus        78 --a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~~---~~~  144 (363)
                        +.+.+......         .+...+..+...|...+.++.+......+.+.-  ..|..      .+...|   +.+
T Consensus       126 ~~a~~~~~~a~~~---------g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~  196 (452)
T 3e4b_A          126 VNAQQQISQWQAA---------GYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQA  196 (452)
T ss_dssp             CCHHHHHHHHHHH---------TCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHC---------CCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHH
Confidence              44444444332         235566667777777765444443322222211  12222      444566   778


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCcHhHHHHHHHH-H--HhcCChhHHH
Q 044256          145 EANRLLELMMQRGLNPVIFTYTPLLNGYCLV----GKVNVAIALFDSMARKGFMPDVFSYSVLING-Y--CKNFNVEEAM  217 (363)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~  217 (363)
                      +|...|++..+.| +++...+..+...|...    +++++|..+|+... .|   ++..+..+... +  ...+++++|+
T Consensus       197 ~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~  271 (452)
T 3e4b_A          197 ELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMM  271 (452)
T ss_dssp             HHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHH
Confidence            8888888887776 34444445666666554    67888888888776 33   44455555554 3  4577888888


Q ss_pred             HHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC-----CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh-
Q 044256          218 NVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG-----HVLEVMELFPTLEISNCELFVEIFNSLIRGCCK-  291 (363)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-  291 (363)
                      ..|++....+               +...+..+...|. .|     ++++|+..|++.. .+   ++..+..|...|.. 
T Consensus       272 ~~~~~Aa~~g---------------~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G  331 (452)
T 3e4b_A          272 KYLDNGRAAD---------------QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRG  331 (452)
T ss_dssp             HHHHHHHHTT---------------CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCC---------------CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCC
Confidence            7777765432               4555666666665 44     7888888888777 43   45566666666655 


Q ss_pred             ---cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcCC
Q 044256          292 ---FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       292 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  345 (363)
                         ..++++|...|++..+.|   +......+...|..    ..++++|..+|+...+.|.
T Consensus       332 ~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          332 YLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             TTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             CCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence               347888888888887765   33444455555543    4577788888887777664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.53  E-value=3.6e-11  Score=101.06  Aligned_cols=282  Identities=13%  Similarity=0.026  Sum_probs=194.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-----cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-----TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      .+......+...|++++|...+++..... +++..     +++.+...+...|++++|...+++........+. .....
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~   93 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV-WHYAL   93 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-HHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCc-HHHHH
Confidence            34455566778999999999999988764 22221     4566777888899999999999998774311000 00112


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCC--C-chhhHHHHHHHHHhcCC
Q 044256          101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLN--P-VIFTYTPLLNGYCLVGK  177 (363)
Q Consensus       101 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~~~~~li~~~~~~~~  177 (363)
                      .++..+...+...|++++|...+++..+..                       ...+.+  | ....+..+...+...|+
T Consensus        94 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~-----------------------~~~~~~~~~~~~~~~~~la~~~~~~g~  150 (373)
T 1hz4_A           94 WSLIQQSEILFAQGFLQTAWETQEKAFQLI-----------------------NEQHLEQLPMHEFLVRIRAQLLWAWAR  150 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------------------HHTTCTTSTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-----------------------HHhccccCcHHHHHHHHHHHHHHHhcC
Confidence            345677788899999999999998876531                       111111  2 23456678888999999


Q ss_pred             HHHHHHHHHHHHHcCCC--C--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH----H
Q 044256          178 VNVAIALFDSMARKGFM--P--DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN----I  249 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~  249 (363)
                      +++|...+++.......  +  ...++..+...+...|++++|...+++.....        ...+. + .....    .
T Consensus       151 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~--------~~~~~-~-~~~~~~~~~~  220 (373)
T 1hz4_A          151 LDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLL--------GNGKY-H-SDWISNANKV  220 (373)
T ss_dssp             HHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--------TTSCC-C-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--------hccCc-c-hhHHHHHHHH
Confidence            99999999988764221  1  23467778888899999999998888765431        11111 1 11111    2


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCc---chHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CCCccH-HHHHHHH
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEISNCE---LFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NLVADV-VAYNILI  321 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~li  321 (363)
                      .+..+...|++++|...+++.......   .....+..+...+...|++++|...+++....    +..++. ..+..+.
T Consensus       221 ~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la  300 (373)
T 1hz4_A          221 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  300 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence            334477899999999999998754321   11335677888999999999999999987643    222233 3666677


Q ss_pred             HHHHccCChhHHHHHHHHHHH
Q 044256          322 HALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .++...|++++|...+++...
T Consensus       301 ~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          301 QLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            888999999999999998765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.52  E-value=2.3e-11  Score=102.43  Aligned_cols=306  Identities=8%  Similarity=-0.076  Sum_probs=208.4

Q ss_pred             CCCchhhHHHHHHHH--HhcCCHHHHHHHHHHHHhc--CCCCCcc--cHHHHHHH--HHhcCChhHHH---------HHH
Q 044256           20 RPLNDVTFNSLIKGF--CMEGNIRDASQLVKKMATF--GCRPNVT--TCDTLITG--LRRTGNMNLTL---------KLH   82 (363)
Q Consensus        20 ~p~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~--~~~~~~~--~~~~l~~~--~~~~~~~~~a~---------~~~   82 (363)
                      .| +..+-+.|-.-|  .+.+++++|..+++++.+.  .+..|..  .|-.++..  ..-.+......         ..+
T Consensus         7 ~~-~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            7 IP-SSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             BC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cc-HHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            55 666666666666  8899999999999988654  2223322  23333322  11122333333         666


Q ss_pred             HHHHhccCCCCCccCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cch------------hhhccCChHH
Q 044256           83 QEMVNGMGDFGGIYKPN----VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN-ANT------------LLCKKTKLVE  145 (363)
Q Consensus        83 ~~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~------------~~~~~~~~~~  145 (363)
                      +.+....      .+.+    ...+......+...|++++|...|++..+.... ++.            .+...|+++.
T Consensus        86 ~~i~~~~------~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~  159 (378)
T 3q15_A           86 ETIETPQ------KKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHV  159 (378)
T ss_dssp             HHHHGGG------HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhccC------CCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHH
Confidence            6665422      1111    112334455678899999999999998864221 111            6778999999


Q ss_pred             HHHHHHHHHHcC--C---CC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChh
Q 044256          146 ANRLLELMMQRG--L---NP-VIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVE  214 (363)
Q Consensus       146 a~~~~~~~~~~~--~---~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~  214 (363)
                      |...+.+..+..  .   .+ ...+++.+...|...|++++|...|++..+.    +..+ ...++..+...|...|+++
T Consensus       160 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~  239 (378)
T 3q15_A          160 SMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQ  239 (378)
T ss_dssp             HHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            999998877531  1   11 2457788999999999999999999887653    2111 2346778888999999999


Q ss_pred             HHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----CcchHHHHHHHHHHHH
Q 044256          215 EAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN----CELFVEIFNSLIRGCC  290 (363)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~  290 (363)
                      +|...+++.....     ..   .+.+....++..+...+.+.|++++|...+++.....    -+.....+..+...+.
T Consensus       240 ~A~~~~~~al~~~-----~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~  311 (378)
T 3q15_A          240 MAVEHFQKAAKVS-----RE---KVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYK  311 (378)
T ss_dssp             HHHHHHHHHHHHH-----HH---HCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHH-----Hh---hCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            9999998876521     11   1222336678888999999999999999999987652    2333445677777788


Q ss_pred             hcCC---hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          291 KFGI---FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       291 ~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..++   +.+|...+++...  .+.....+..+...|...|++++|...|++..+
T Consensus       312 ~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          312 ETVDERKIHDLLSYFEKKNL--HAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             SSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhCCC--hhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888   7778777776322  122345667788899999999999999999875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.51  E-value=2.3e-11  Score=102.21  Aligned_cols=275  Identities=9%  Similarity=-0.118  Sum_probs=187.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchh----hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCc----ccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDV----TFNSLIKGFCMEGNIRDASQLVKKMATFGC-RPNV----TTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~----~~~~~l~~~~~~   71 (363)
                      .|++++|...++....... +.+..    +++.+...+...|++++|...+++...... .++.    .++..+...+..
T Consensus        27 ~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  105 (373)
T 1hz4_A           27 DGNPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA  105 (373)
T ss_dssp             TTCHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            4789999999999887632 21222    567777888999999999999998875411 1122    235667788899


Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHH
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLL  150 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  150 (363)
                      .|++++|...+++........+....| ....+..+...+...|++++|...+++........                 
T Consensus       106 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~-----------------  168 (373)
T 1hz4_A          106 QGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSY-----------------  168 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTS-----------------
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcc-----------------
Confidence            999999999999887653211100012 24466778888999999999999999987643211                 


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HhHHH-----HHHHHHHhcCChhHHHHHHHHHH
Q 044256          151 ELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD-VFSYS-----VLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                            +.+....++..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...+++..
T Consensus       169 ------~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~  242 (373)
T 1hz4_A          169 ------QPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA  242 (373)
T ss_dssp             ------CGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ------CcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCC
Confidence                  1011234677788889999999999999998865421111 11121     23344778999999987776653


Q ss_pred             HhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCcchH-HHHHHHHHHHHhcCChHHHH
Q 044256          225 LNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----NCELFV-EIFNSLIRGCCKFGIFEIAS  299 (363)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~~~~~~a~  299 (363)
                      ...         ..........+..+...+...|++++|...++.....    +.+++. .++..+..++...|+.++|.
T Consensus       243 ~~~---------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  313 (373)
T 1hz4_A          243 KPE---------FANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQ  313 (373)
T ss_dssp             CCC---------CTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCC---------CCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHH
Confidence            211         0000011224567778899999999999999987643    222233 36677788899999999999


Q ss_pred             HHHHHhhhC
Q 044256          300 ELFNKLSCK  308 (363)
Q Consensus       300 ~~~~~~~~~  308 (363)
                      ..+++....
T Consensus       314 ~~l~~al~~  322 (373)
T 1hz4_A          314 RVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988753

>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=99.51  E-value=7.1e-12  Score=97.64  Aligned_cols=195  Identities=12%  Similarity=-0.046  Sum_probs=87.3

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHH
Q 044256          138 CKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAM  217 (363)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  217 (363)
                      ...|++++|...|++.++...+++...+..+..++...|++++|+..++...+.. +.+...+..+...|...|++++|.
T Consensus        18 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~   96 (228)
T 4i17_A           18 LNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYI   96 (228)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHH
Confidence            3445555555555554444322333444444444455555555555555444432 113334444444445555555555


Q ss_pred             HHHHHHHHhhHHHHHHHhHhcCCCCCh-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc--hHHHHHHHHHH
Q 044256          218 NVSREMILNGFKKIFNEMKLCNVVPET-------FTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL--FVEIFNSLIRG  288 (363)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~  288 (363)
                      ..+++.++..             +.+.       ..|..+...+...|++++|++.|+++.+.. +.  +...+..+..+
T Consensus        97 ~~~~~al~~~-------------p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           97 ATLTEGIKAV-------------PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHHHHHHS-------------TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-------------CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHHH
Confidence            4444444332             1112       223344444444455555555555544432 22  23344444444


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          289 CCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       289 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      |...|     ..+++++...+ ..+...|.....  ...+.+++|+..+++..+  +.|+......++.
T Consensus       163 ~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l~  221 (228)
T 4i17_A          163 FYNNG-----ADVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVT--LSPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHH-----HHHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHH-----HHHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            43222     22233333321 112222222221  223345999999999998  4676555544443

>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=99.50  E-value=4.7e-12  Score=94.97  Aligned_cols=166  Identities=11%  Similarity=0.017  Sum_probs=143.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                      ...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++....             +
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~   73 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-------------P   73 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------T
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------------C
Confidence            3467778888999999999999999887653 3467788889999999999999999988877653             3


Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .+...+..+...+...|++++|.+.++++.... +.+...+..+...+...|++++|...++++.... +.+...+..+.
T Consensus        74 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la  151 (186)
T 3as5_A           74 DNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIA  151 (186)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHH
Confidence            456788888999999999999999999998775 6678889999999999999999999999998874 45788999999


Q ss_pred             HHHHccCChhHHHHHHHHHHHc
Q 044256          322 HALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+...|++++|...+++..+.
T Consensus       152 ~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          152 FSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc
Confidence            9999999999999999998874

>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=99.49  E-value=2.1e-12  Score=103.95  Aligned_cols=178  Identities=13%  Similarity=-0.026  Sum_probs=139.8

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHH
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARK------GF-MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIF  232 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  232 (363)
                      ....++..+...|...|++++|+..+++..+.      +- +....++..+...|...|++++|...++++...     .
T Consensus        41 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----~  115 (283)
T 3edt_B           41 DVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEI-----R  115 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----H
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-----H
Confidence            34678889999999999999999999988754      22 224567888999999999999999999987643     2


Q ss_pred             HHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc------c-CcchHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 044256          233 NEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS------N-CELFVEIFNSLIRGCCKFGIFEIASELFNKL  305 (363)
Q Consensus       233 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  305 (363)
                      ........+....++..+...+...|++++|...++++.+.      + .+....++..+...|...|++++|...++++
T Consensus       116 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  195 (283)
T 3edt_B          116 EKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI  195 (283)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            22211111234567888899999999999999999998865      1 2345678889999999999999999999988


Q ss_pred             hhC------------------------------------------------CCCccHHHHHHHHHHHHccCChhHHHHHH
Q 044256          306 SCK------------------------------------------------NLVADVVAYNILIHALGKEGQIKKENYLL  337 (363)
Q Consensus       306 ~~~------------------------------------------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~  337 (363)
                      ...                                                ..+....++..+...|...|++++|..++
T Consensus       196 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  275 (283)
T 3edt_B          196 LTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLE  275 (283)
T ss_dssp             HHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            753                                                11223557788889999999999999999


Q ss_pred             HHHHH
Q 044256          338 LSMEE  342 (363)
Q Consensus       338 ~~m~~  342 (363)
                      ++.++
T Consensus       276 ~~al~  280 (283)
T 3edt_B          276 DCASR  280 (283)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            99876

>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=99.48  E-value=3.7e-12  Score=114.84  Aligned_cols=172  Identities=14%  Similarity=0.047  Sum_probs=148.7

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           19 YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ..|.++.+|+.+..++.+.|++++|+..|++.++.. +-+..+|..+..++.+.|++++|+..|++.++..       +.
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-------P~   75 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-------PT   75 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------CC
Confidence            367688999999999999999999999999999874 3356789999999999999999999999999864       45


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      +...|..+..++.+.|++++|++.|++..+..                            +-+...|..+..+|...|++
T Consensus        76 ~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~----------------------------P~~~~a~~~Lg~~~~~~g~~  127 (723)
T 4gyw_A           76 FADAYSNMGNTLKEMQDVQGALQCYTRAIQIN----------------------------PAFADAHSNLASIHKDSGNI  127 (723)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------------------CCCHHHHHHHHHHHHHcCCH
Confidence            68899999999999999999999999988752                            22467899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                      ++|+..|++..+.. +-+...+..+..++...|++++|.+.++++.+..
T Consensus       128 ~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~l~  175 (723)
T 4gyw_A          128 PEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERMKKLVSIV  175 (723)
T ss_dssp             HHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHHHHHHHhC
Confidence            99999999998873 2357789999999999999999999999886543

>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=99.48  E-value=4.4e-12  Score=114.37  Aligned_cols=166  Identities=14%  Similarity=-0.023  Sum_probs=147.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      +..+|+.|...|.+.|++++|+..|++..+.. +-+..++..+..+|.+.|++++|+..|++.++..             
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-------------   73 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-------------   73 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------
Confidence            46789999999999999999999999998873 2357789999999999999999999999988764             


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                      +-+...|..+..++...|++++|++.|++..+.. +-+...|..+..+|...|++++|.+.|++..+.. +-+...|..+
T Consensus        74 P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L  151 (723)
T 4gyw_A           74 PTFADAYSNMGNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNL  151 (723)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhh
Confidence            2356789999999999999999999999999876 6678899999999999999999999999999874 4478899999


Q ss_pred             HHHHHccCChhHHHHHHHHHHH
Q 044256          321 IHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..++...|++++|.+.+++.++
T Consensus       152 ~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          152 AHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHTTCCTTHHHHHHHHHH
T ss_pred             hhHHHhcccHHHHHHHHHHHHH
Confidence            9999999999999999998875

>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=99.47  E-value=1.1e-11  Score=92.87  Aligned_cols=168  Identities=14%  Similarity=0.020  Sum_probs=142.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ....|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|...++.+.+..       +.+..+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~   78 (186)
T 3as5_A            7 RQVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-------PDNVKV   78 (186)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             hhHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------CCCHHH
Confidence            45678888999999999999999999988763 4466788889999999999999999999999864       556788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (363)
                      +..+...+...|++++|.+.++++.+..                            +.+...+..+...+...|++++|.
T Consensus        79 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~----------------------------~~~~~~~~~~a~~~~~~~~~~~A~  130 (186)
T 3as5_A           79 ATVLGLTYVQVQKYDLAVPLLIKVAEAN----------------------------PINFNVRFRLGVALDNLGRFDEAI  130 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC----------------------------cHhHHHHHHHHHHHHHcCcHHHHH
Confidence            9999999999999999999999987642                            335567888889999999999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          183 ALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                      ..++.+.+.. +.+...+..+...+...|++++|...++++....
T Consensus       131 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          131 DSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            9999988774 3467788889999999999999999988876543

>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=99.45  E-value=3.2e-11  Score=93.87  Aligned_cols=105  Identities=5%  Similarity=-0.158  Sum_probs=91.7

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .+.++..|......+...|++++|+..|++..+...+++...+..+..++...|++++|+..|++..+..       +.+
T Consensus         3 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-------p~~   75 (228)
T 4i17_A            3 QTTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-------YNL   75 (228)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-------CSH
T ss_pred             cccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-------cch
Confidence            3447889999999999999999999999999987633777788889999999999999999999999864       456


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                      ..+|..+..++...|++++|...+++..+..+
T Consensus        76 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  107 (228)
T 4i17_A           76 ANAYIGKSAAYRDMKNNQEYIATLTEGIKAVP  107 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence            78899999999999999999999999987643

>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=99.43  E-value=8.3e-10  Score=98.62  Aligned_cols=346  Identities=10%  Similarity=-0.000  Sum_probs=197.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcC-CCCCcccHHHHHHHHHhcCCh--
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGN---IRDASQLVKKMATFG-CRPNVTTCDTLITGLRRTGNM--   75 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~~~~--   75 (363)
                      ++++.+..+|+.++..  .|.+...|...+..-.+.++   ++.+..+|++.+... .+|++..|...+....+.++.  
T Consensus        80 ~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~  157 (679)
T 4e6h_A           80 KQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIIT  157 (679)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTT
T ss_pred             CcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhccccc
Confidence            5678899999999987  78788999999999999998   999999999998763 138888888877766555543  


Q ss_pred             ------hHHHHHHHHHHhccCCCCCcc-CC-chhhHHHHHHHHHh---------cCCHHHHHHHHHHHHHcCCCcch-h-
Q 044256           76 ------NLTLKLHQEMVNGMGDFGGIY-KP-NVFCYGSLIDGLCK---------DRLVDQTKDLFMEMKDKGINANT-L-  136 (363)
Q Consensus        76 ------~~a~~~~~~~~~~~~~~~~~~-~~-~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~-~-  136 (363)
                            +...++|+.....-+     . .+ +...|...+.....         .++++.+..+|+..+........ . 
T Consensus       158 ~~~~~r~~vr~~FErAl~~vG-----~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w  232 (679)
T 4e6h_A          158 GGEEARNIVIQAFQVVVDKCA-----IFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMW  232 (679)
T ss_dssp             THHHHHHHHHHHHHHHHHHTT-----TTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHHhC-----cccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHH
Confidence                  334577777665421     2 23 34567666654322         23345555666555532111000 0 


Q ss_pred             -----hh--------------ccCChHH----------------------------------------------------
Q 044256          137 -----LC--------------KKTKLVE----------------------------------------------------  145 (363)
Q Consensus       137 -----~~--------------~~~~~~~----------------------------------------------------  145 (363)
                           +.              ....++.                                                    
T Consensus       233 ~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fE  312 (679)
T 4e6h_A          233 QRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWE  312 (679)
T ss_dssp             HHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHH
Confidence                 00              0001111                                                    


Q ss_pred             ---------------HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH-HHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 044256          146 ---------------ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAI-ALFDSMARKGFMPDVFSYSVLINGYCK  209 (363)
Q Consensus       146 ---------------a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~  209 (363)
                                     +..+|++++... +-+...|...+..+...|+.+.|. .+|+..... ++.+...|...+....+
T Consensus       313 k~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~  390 (679)
T 4e6h_A          313 SDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYEL  390 (679)
T ss_dssp             HTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             HhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHH
Confidence                           112222222211 112233333444445566666775 777766654 33345555566666666


Q ss_pred             cCChhHHHHHHHHHHHhh------------------------H--------------------HHHHHHhHhcCCCCChH
Q 044256          210 NFNVEEAMNVSREMILNG------------------------F--------------------KKIFNEMKLCNVVPETF  245 (363)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~------------------------~--------------------~~~~~~~~~~~~~~~~~  245 (363)
                      .|+++.|..+|++++...                        .                    ..+|....+........
T Consensus       391 ~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~  470 (679)
T 4e6h_A          391 NTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPD  470 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTH
T ss_pred             hCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChH
Confidence            777777777777665420                        0                    22222222220111223


Q ss_pred             HHHHHHHHHHhc-CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC--ccHHHHHHHHH
Q 044256          246 TCNIFIDGLCKN-GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV--ADVVAYNILIH  322 (363)
Q Consensus       246 ~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~  322 (363)
                      .|...+..-.+. ++.+.|.++|+...+. ++.+...+...+......|+.+.|..+|++.......  -....|...+.
T Consensus       471 lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~  549 (679)
T 4e6h_A          471 IYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIF  549 (679)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            333322222233 3477888888877765 3445566667777777778888888888887765321  13456777777


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          323 ALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      .-.+.|+.+.+.++.+++.+.  .|+......++.-|
T Consensus       550 fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          550 FESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            777778888888888888774  34444444444433

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.42  E-value=3.3e-11  Score=101.46  Aligned_cols=247  Identities=8%  Similarity=-0.086  Sum_probs=177.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           28 NSLIKGFCMEGNIRDASQLVKKMATFGC-RPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        28 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ......+...|++++|+..|++..+... .++    ..++..+..++...|+++.|...+++..+.....+........+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            3345556789999999999999876421 122    34678888999999999999999999887542111000112567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHhcCCHHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLN-PVIFTYTPLLNGYCLVGKVNVA  181 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a  181 (363)
                      ++.+..+|...|++++|...+++..+..                       .+.+.+ ....++..+...|...|++++|
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~-----------------------~~~~~~~~~~~~~~~lg~~y~~~~~~~~A  241 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELA-----------------------MDIQNDRFIAISLLNIANSYDRSGDDQMA  241 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------------------HHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHH-----------------------HHcCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            8889999999999999999998877531                       011111 1235778889999999999999


Q ss_pred             HHHHHHHHHc----CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          182 IALFDSMARK----GFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       182 ~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      +..+++..+.    +.+....++..+...+.+.|++++|...+++.....        ...+.+.....+..+...+...
T Consensus       242 ~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--------~~~~~~~~~~~~~~l~~ly~~~  313 (378)
T 3q15_A          242 VEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHI--------TARSHKFYKELFLFLQAVYKET  313 (378)
T ss_dssp             HHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------CTTCCSCHHHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--------HHcCCHHHHHHHHHHHHHHhCC
Confidence            9999988761    223346678888899999999999999988876432        1112222334566666677777


Q ss_pred             CC---HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          258 GH---VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       258 ~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ++   +.+|+..+++...  .+.....+..+...|...|++++|...|++...
T Consensus       314 ~~~~~~~~al~~~~~~~~--~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          314 VDERKIHDLLSYFEKKNL--HAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhCCC--hhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88   7778777776321  133445677899999999999999999998865

>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=99.41  E-value=2.3e-11  Score=97.78  Aligned_cols=214  Identities=13%  Similarity=-0.034  Sum_probs=153.3

Q ss_pred             HhcCChhHHHHHHHHHHhccCCCC-CccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHH
Q 044256           70 RRTGNMNLTLKLHQEMVNGMGDFG-GIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANR  148 (363)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  148 (363)
                      ...|++++|...|++..+.-.... ...+....++..+...+...|++++|...+++..+.                   
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-------------------   72 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAI-------------------   72 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-------------------
Confidence            356677777777776665321000 002345778899999999999999999999988753                   


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------C-CCCcHhHHHHHHHHHHhcCChhHHHHHHH
Q 044256          149 LLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK------G-FMPDVFSYSVLINGYCKNFNVEEAMNVSR  221 (363)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (363)
                       .........+....++..+...|...|++++|...+++..+.      . .+....++..+...|...|++++|...++
T Consensus        73 -~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  151 (283)
T 3edt_B           73 -REKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYR  151 (283)
T ss_dssp             -HHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             -HHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence             111110111234568888999999999999999999988764      1 12345678888899999999999999998


Q ss_pred             HHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----------------------------
Q 044256          222 EMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----------------------------  273 (363)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----------------------------  273 (363)
                      ++...     .........+....++..+..++...|++++|...++++.+.                            
T Consensus       152 ~al~~-----~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (283)
T 3edt_B          152 RALEI-----YATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKD  226 (283)
T ss_dssp             HHHHH-----HHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTC
T ss_pred             HHHHH-----HHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCC
Confidence            87653     111111111223567888899999999999999999998754                            


Q ss_pred             --------------------cCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          274 --------------------NCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       274 --------------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                                          ..+....++..+...|...|++++|..++++..+.
T Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          227 KRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             chhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                                11334567888999999999999999999988753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.38  E-value=1.3e-10  Score=94.09  Aligned_cols=217  Identities=11%  Similarity=-0.032  Sum_probs=154.7

Q ss_pred             CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHc----CCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256          115 LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQR----GLNPV-IFTYTPLLNGYCLVGKVNVAIALFDSMA  189 (363)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (363)
                      ++++|...|++...       .+...|++++|...+.+....    +-+++ ..+|+.+..+|.+.|++++|+..+++..
T Consensus        32 ~~~~A~~~~~~a~~-------~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al  104 (292)
T 1qqe_A           32 KFEEAADLCVQAAT-------IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAI  104 (292)
T ss_dssp             HHHHHHHHHHHHHH-------HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHH-------HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            47888888887743       466778888888888777653    22222 5688999999999999999999999876


Q ss_pred             Hc----CCCC-cHhHHHHHHHHHHhc-CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHH
Q 044256          190 RK----GFMP-DVFSYSVLINGYCKN-FNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLE  262 (363)
Q Consensus       190 ~~----~~~~-~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~  262 (363)
                      +.    |-.+ ...++..+...|... |++++|+..+++.+....        ..+..+ ...++..+...+...|++++
T Consensus       105 ~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~--------~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A          105 QIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYA--------QDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH--------HTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHH--------hCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            54    2111 135788888899996 999999999998875431        111001 13468888999999999999


Q ss_pred             HHHHHHHHHhccCcchH------HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccH------HHHHHHHHHHH--ccC
Q 044256          263 VMELFPTLEISNCELFV------EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADV------VAYNILIHALG--KEG  328 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~--~~g  328 (363)
                      |+..|++..+.......      ..|..+..++...|++++|...|++.....  |+.      ..+..++.++.  ..+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            99999999876422211      256778888999999999999999998752  321      23445556664  456


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHH
Q 044256          329 QIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       329 ~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      ++++|+..|+++..  +.|...
T Consensus       255 ~~~~A~~~~~~~~~--l~~~~~  274 (292)
T 1qqe_A          255 QLSEHCKEFDNFMR--LDKWKI  274 (292)
T ss_dssp             THHHHHHHHTTSSC--CCHHHH
T ss_pred             HHHHHHHHhccCCc--cHHHHH
Confidence            78888888877654  455443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.33  E-value=6e-10  Score=90.11  Aligned_cols=245  Identities=8%  Similarity=-0.100  Sum_probs=168.4

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhc--C-CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCME--G-NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~--~-~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      .+|.+++.+..+.  .+.+...| .+.    +.  + ++++|...|++.               ...|...|++++|...
T Consensus         2 ~~a~~~~~~a~k~--~~~~~~~~-~~~----~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   59 (292)
T 1qqe_A            2 SDPVELLKRAEKK--GVPSSGFM-KLF----SGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDS   59 (292)
T ss_dssp             CCHHHHHHHHHHH--SSCCCTHH-HHH----SCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHH
T ss_pred             CcHHHHHHHHHHH--hCcCCCcc-hhc----CCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            4678888888776  33122333 322    32  2 589999999887               3467789999999999


Q ss_pred             HHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           82 HQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      |++..+.....+  -++ ...+|+.+..+|.+.|++++|+..+++..+..       ...|+...               
T Consensus        60 ~~~al~~~~~~~--~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~-------~~~g~~~~---------------  115 (292)
T 1qqe_A           60 FLKAADYQKKAG--NEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIF-------THRGQFRR---------------  115 (292)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------HHTTCHHH---------------
T ss_pred             HHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-------HHcCCHHH---------------
Confidence            998876431110  111 25689999999999999999999999887531       11111111               


Q ss_pred             chhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCC----CCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHH
Q 044256          161 VIFTYTPLLNGYCLV-GKVNVAIALFDSMARKGF----MPD-VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNE  234 (363)
Q Consensus       161 ~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  234 (363)
                      -..+++.+...|... |++++|+..|++..+...    .+. ..++..+...+.+.|++++|+..+++......      
T Consensus       116 ~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~------  189 (292)
T 1qqe_A          116 GANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSM------  189 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTS------
T ss_pred             HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHh------
Confidence            134677888899996 999999999998876411    101 35688889999999999999999888776430      


Q ss_pred             hHhcCCCCCh-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch------HHHHHHHHHHHH--hcCChHHHHHH
Q 044256          235 MKLCNVVPET-----FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF------VEIFNSLIRGCC--KFGIFEIASEL  301 (363)
Q Consensus       235 ~~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~--~~~~~~~a~~~  301 (363)
                        .   .+..     ..|..+..++...|++++|...|++..+..  |+      ...+..++.++.  ..+++++|...
T Consensus       190 --~---~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~  262 (292)
T 1qqe_A          190 --G---NRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKE  262 (292)
T ss_dssp             --S---CTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHH
T ss_pred             --c---CCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence              0   0111     156777888899999999999999987642  22      113445566664  45678889888


Q ss_pred             HHHhhhC
Q 044256          302 FNKLSCK  308 (363)
Q Consensus       302 ~~~~~~~  308 (363)
                      |+.+...
T Consensus       263 ~~~~~~l  269 (292)
T 1qqe_A          263 FDNFMRL  269 (292)
T ss_dssp             HTTSSCC
T ss_pred             hccCCcc
Confidence            8877654

>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=99.33  E-value=3.2e-08  Score=88.46  Aligned_cols=142  Identities=8%  Similarity=0.031  Sum_probs=103.9

Q ss_pred             hHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCC---hhHHHHHH
Q 044256            6 GALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGN---MNLTLKLH   82 (363)
Q Consensus         6 ~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~   82 (363)
                      +.+..|+..+..  .|.|...|..++..+.+.+.++.+..+|+++... .+.+...|...+..-.+.++   .+.+..+|
T Consensus        50 d~i~~lE~~l~~--np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           50 DVIGKLNDMIEE--QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             CHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHH--CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            445566777666  6779999999999999999999999999999987 35566778888888888888   99999999


Q ss_pred             HHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH--------HHHHHHHHHHHH-cCC-Ccch-----hhh---------
Q 044256           83 QEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV--------DQTKDLFMEMKD-KGI-NANT-----LLC---------  138 (363)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~~~-----~~~---------  138 (363)
                      ++.+....     .+|++..|...+....+.++.        +.+.++|+.... .|. .+..     .+.         
T Consensus       127 eRal~~~~-----~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~  201 (679)
T 4e6h_A          127 ARCLSKEL-----GNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPV  201 (679)
T ss_dssp             HHHTCSSS-----CCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHhcC-----CCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhcccc
Confidence            99998531     138888999888776665543        334577777655 344 4443     111         


Q ss_pred             ----ccCChHHHHHHHHHHHH
Q 044256          139 ----KKTKLVEANRLLELMMQ  155 (363)
Q Consensus       139 ----~~~~~~~a~~~~~~~~~  155 (363)
                          ..++++.+..+|+.++.
T Consensus       202 ~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          202 NKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTT
T ss_pred             CcHHHHhHHHHHHHHHHHHHh
Confidence                23456678888888775

>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=99.32  E-value=2.2e-10  Score=80.80  Aligned_cols=130  Identities=18%  Similarity=0.105  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF  278 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  278 (363)
                      .+..+...+...|++++|..+++++....             +.+...+..+...+...|++++|...++++.... +.+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~   68 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-------------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRS   68 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-------------CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCc
Confidence            46677788889999999998888876543             2456778888899999999999999999998775 556


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ...+..+...+...|++++|.+.++++.... +.+...+..+...+.+.|++++|...++++.+.
T Consensus        69 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           69 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7888999999999999999999999998764 456888899999999999999999999999874

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.29  E-value=5.1e-10  Score=88.99  Aligned_cols=191  Identities=9%  Similarity=-0.042  Sum_probs=139.3

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN----VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGI   95 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   95 (363)
                      .|.++..+..+...+.+.|++++|+..|+++.+..  |+    ...+..+..++.+.|++++|...|+.+.+..+.    
T Consensus        11 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~----   84 (261)
T 3qky_A           11 RHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQI----   84 (261)
T ss_dssp             CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCC----
Confidence            55578889999999999999999999999999873  43    457788899999999999999999999986410    


Q ss_pred             cCCchhhHHHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHH
Q 044256           96 YKPNVFCYGSLIDGLCK--------DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTP  167 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (363)
                      .+.....+..+..++..        .|++++|...|+++.+..+....       ...+...+..+...    ....+..
T Consensus        85 ~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~-------~~~a~~~~~~~~~~----~~~~~~~  153 (261)
T 3qky_A           85 DPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHEL-------VDDATQKIRELRAK----LARKQYE  153 (261)
T ss_dssp             CTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTT-------HHHHHHHHHHHHHH----HHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchh-------HHHHHHHHHHHHHH----HHHHHHH
Confidence            11224567778888888        89999999999998876432211       11121111111110    0122456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHhc----------CChhHHHHHHHHHHHhh
Q 044256          168 LLNGYCLVGKVNVAIALFDSMARKGFMP--DVFSYSVLINGYCKN----------FNVEEAMNVSREMILNG  227 (363)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~  227 (363)
                      +...|.+.|++++|+..|+.+.+.....  ....+..+..+|...          |++++|...+++++...
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            7888999999999999999998763211  244677777778766          88999999998887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.29  E-value=4.9e-10  Score=85.75  Aligned_cols=172  Identities=12%  Similarity=-0.055  Sum_probs=129.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHhHHHH----------------HHHHHHhcCChhHHHHHHHHHHHhhH
Q 044256          166 TPLLNGYCLVGKVNVAIALFDSMARKGFMP-DVFSYSV----------------LINGYCKNFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (363)
                      ......+...|++++|+..|+...+.  .| +...|..                +..+|.+.|++++|+..+++.++.. 
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   84 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-   84 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-
Confidence            33455667788888888888888776  23 3445555                8888999999999999999988765 


Q ss_pred             HHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC--hHHHHHHHHHhh
Q 044256          229 KKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI--FEIASELFNKLS  306 (363)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~--~~~a~~~~~~~~  306 (363)
                                  +.+...+..+..++...|++++|+..|+++.+.. |.+..++..+..+|...|+  .+.+...++...
T Consensus        85 ------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~  151 (208)
T 3urz_A           85 ------------PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS  151 (208)
T ss_dssp             ------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             ------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh
Confidence                        2457788999999999999999999999999886 6678889999888876654  445555666554


Q ss_pred             hCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          307 CKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       307 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      .  ..|....+.....++...|++++|...|++.++  +.|+......+.+
T Consensus       152 ~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~~  198 (208)
T 3urz_A          152 S--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDK  198 (208)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHHH
T ss_pred             C--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHHH
Confidence            2  233334455556677788999999999999998  6788776655443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.28  E-value=2.7e-09  Score=85.03  Aligned_cols=168  Identities=13%  Similarity=0.016  Sum_probs=109.8

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      ++..++..+..++...|++++|++++.+.+..+..                          .-+...+..++..+.+.|+
T Consensus        98 ~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~--------------------------~~~lea~~l~vqi~L~~~r  151 (310)
T 3mv2_B           98 NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEA--------------------------EGTTELLLLAIEVALLNNN  151 (310)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCS--------------------------TTHHHHHHHHHHHHHHTTC
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC--------------------------cCcHHHHHHHHHHHHHCCC
Confidence            33344445556666666666666666655433210                          1245677788888999999


Q ss_pred             HHHHHHHHHHHHHcCCCC-----cHhHHHHHHHHHH--h--cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH
Q 044256          178 VNVAIALFDSMARKGFMP-----DVFSYSVLINGYC--K--NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN  248 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~--~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (363)
                      .+.|.+.++.|.+.  .|     +..+...+..++.  .  .+++.+|..+|+++....              |+..+-.
T Consensus       152 ~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--------------p~~~~~~  215 (310)
T 3mv2_B          152 VSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--------------PTWKTQL  215 (310)
T ss_dssp             HHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--------------CSHHHHH
T ss_pred             HHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--------------CCcccHH
Confidence            99999999998776  45     2455555555532  2  348899988887765442              5533334


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcc---------CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          249 IFIDGLCKNGHVLEVMELFPTLEISN---------CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       249 ~ll~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .++.++...|++++|.+.++.+.+..         -+.++.+...+|......|+  +|.++++++.+..
T Consensus       216 lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          216 GLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            44457888899999999998765431         14467777666666666676  7888888888763

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.27  E-value=4.9e-09  Score=83.51  Aligned_cols=171  Identities=8%  Similarity=-0.063  Sum_probs=128.2

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGF-MPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      ++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.+..           
T Consensus        98 ~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~-----------  166 (310)
T 3mv2_B           98 NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAI-----------  166 (310)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-----------
Confidence            4455566888999999999999999999877653 2366788889999999999999999988886653           


Q ss_pred             CCCC-----ChHHHHHHHHHHH--hcC--CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC-
Q 044256          239 NVVP-----ETFTCNIFIDGLC--KNG--HVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK-  308 (363)
Q Consensus       239 ~~~~-----~~~~~~~ll~~~~--~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-  308 (363)
                         |     +..+...++.++.  ..|  +..+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.+. 
T Consensus       167 ---~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          167 ---EDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             ---ccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence               6     3556666666633  334  899999999998765  344333344444899999999999999977653 


Q ss_pred             ----C----CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH
Q 044256          309 ----N----LVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       309 ----~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                          +    -+.|+.++..+|......|+  +|.+++.++.+  ..|+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp  287 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHA  287 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCCh
Confidence                1    14477777677766666786  89999999998  456544

>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=99.27  E-value=5.5e-10  Score=78.71  Aligned_cols=131  Identities=12%  Similarity=0.143  Sum_probs=97.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      .+|..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++....       +.+...+.
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~~~   73 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-------PRSAEAWY   73 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TTCHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-------CCchHHHH
Confidence            356777788888888888888888887664 3455667777788888888888888888887754       44566777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIAL  184 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  184 (363)
                      .+...+...|++++|...++++.+..                            +.+..++..+...+...|++++|...
T Consensus        74 ~l~~~~~~~~~~~~A~~~~~~~~~~~----------------------------~~~~~~~~~la~~~~~~~~~~~A~~~  125 (136)
T 2fo7_A           74 NLGNAYYKQGDYDEAIEYYQKALELD----------------------------PRSAEAWYNLGNAYYKQGDYDEAIEY  125 (136)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC----------------------------CCChHHHHHHHHHHHHHccHHHHHHH
Confidence            77888888888888888887776541                            22345667777778888888888888


Q ss_pred             HHHHHHc
Q 044256          185 FDSMARK  191 (363)
Q Consensus       185 ~~~~~~~  191 (363)
                      ++.+...
T Consensus       126 ~~~~~~~  132 (136)
T 2fo7_A          126 YQKALEL  132 (136)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcc
Confidence            8777664

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.25  E-value=1.7e-10  Score=88.36  Aligned_cols=161  Identities=9%  Similarity=-0.017  Sum_probs=119.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHH----------------HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNS----------------LIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDT   64 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   64 (363)
                      .|++++|+..|+.+.+.  .|.++..|..                +..++.+.|++++|+..|++.++.. +-+...+..
T Consensus        17 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~   93 (208)
T 3urz_A           17 AGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEA   93 (208)
T ss_dssp             TTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHH
Confidence            48899999999999987  7757778888                8999999999999999999998874 446778889


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCH--HHHHHHHHHHHHcCCCcchhhhccCC
Q 044256           65 LITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLV--DQTKDLFMEMKDKGINANTLLCKKTK  142 (363)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~~  142 (363)
                      +..++...|++++|...|++..+..       +.+..+|..+..++...|+.  +.+...++....              
T Consensus        94 lg~~~~~~g~~~~A~~~~~~al~~~-------P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--------------  152 (208)
T 3urz_A           94 CAEMQVCRGQEKDALRMYEKILQLE-------ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--------------  152 (208)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-------CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--------------
Confidence            9999999999999999999999864       55678888888877655432  333333333321              


Q ss_pred             hHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHH
Q 044256          143 LVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSV  202 (363)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  202 (363)
                                     ..|....+.....++...|++++|+..|++..+.  .|+......
T Consensus       153 ---------------~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~  195 (208)
T 3urz_A          153 ---------------PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKT  195 (208)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHH
T ss_pred             ---------------CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHH
Confidence                           1222333444555666788999999999998876  566544433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.25  E-value=1.1e-09  Score=87.02  Aligned_cols=176  Identities=12%  Similarity=-0.095  Sum_probs=135.1

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc---HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD---VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      .+...+..+...+.+.|++++|+..|+.+.+... .+   ...+..+..+|.+.|++++|...|++++...+        
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p--------   83 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQ--------   83 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--------
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCC--------
Confidence            3456777788889999999999999999988732 13   56778888899999999999999988876530        


Q ss_pred             hcCCCCChHHHHHHHHHHHh--------cCCHHHHHHHHHHHHhccCcchHHHH-----------------HHHHHHHHh
Q 044256          237 LCNVVPETFTCNIFIDGLCK--------NGHVLEVMELFPTLEISNCELFVEIF-----------------NSLIRGCCK  291 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~  291 (363)
                        +.+.....+..+..++..        .|++++|+..|+++.+.. |.+....                 ..+...|..
T Consensus        84 --~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~  160 (261)
T 3qky_A           84 --IDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYER  160 (261)
T ss_dssp             --TCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              001123456677778888        999999999999998764 3333333                 556888999


Q ss_pred             cCChHHHHHHHHHhhhCCCC--ccHHHHHHHHHHHHcc----------CChhHHHHHHHHHHHcCCCCCH
Q 044256          292 FGIFEIASELFNKLSCKNLV--ADVVAYNILIHALGKE----------GQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       292 ~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      .|++++|...|+++.+....  .....+..+..+|...          |++++|...|+++++.  .|+.
T Consensus       161 ~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          161 RELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             ccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            99999999999999876311  1356777788888866          8999999999999984  4554

>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=99.23  E-value=3.9e-10  Score=102.10  Aligned_cols=174  Identities=11%  Similarity=-0.109  Sum_probs=142.9

Q ss_pred             hccCChHHHHHHHHHHH--------HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 044256          138 CKKTKLVEANRLLELMM--------QRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK  209 (363)
Q Consensus       138 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  209 (363)
                      ...|++++|.+.+++..        +.. +.+...+..+...+...|++++|+..|++..+.. +.+...|..+..++..
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            56788888888888887        332 4456788889999999999999999999998763 3367788889999999


Q ss_pred             cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHH
Q 044256          210 NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGC  289 (363)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  289 (363)
                      .|++++|...|+++++..             +.+...+..+..++...|++++ ++.|+++.+.+ +.+...|..+..++
T Consensus       480 ~g~~~~A~~~~~~al~l~-------------P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~  544 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-------------PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARAR  544 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-------------TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-------------CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHH
Confidence            999999999999988765             2356788899999999999999 99999999876 66788999999999


Q ss_pred             HhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCC
Q 044256          290 CKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQ  329 (363)
Q Consensus       290 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  329 (363)
                      .+.|++++|.+.|+++.+.+ +-+...|..+..++...++
T Consensus       545 ~~~g~~~~A~~~~~~al~l~-P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          545 SAEGDRVGAVRTLDEVPPTS-RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTTCHHHHHHHHHTSCTTS-TTHHHHHHHHHHHTC----
T ss_pred             HHcCCHHHHHHHHHhhcccC-cccHHHHHHHHHHHHccCC
Confidence            99999999999999998874 3356778888888876555

>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=99.22  E-value=3.6e-09  Score=81.14  Aligned_cols=180  Identities=13%  Similarity=-0.044  Sum_probs=142.5

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcC----ChhHHHHHH
Q 044256          145 EANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNF----NVEEAMNVS  220 (363)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  220 (363)
                      +|.+.|++..+.|   +...+..+...|...+++++|+.+|++..+.|   ++..+..|-..|.. +    ++++|...|
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            4556666666654   56778888899999999999999999998875   56777777777777 6    899999998


Q ss_pred             HHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCc-chHHHHHHHHHHHHh----
Q 044256          221 REMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK----NGHVLEVMELFPTLEISNCE-LFVEIFNSLIRGCCK----  291 (363)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----  291 (363)
                      ++....               .+...+..+...|..    .+++++|+..|++..+.+.. .++..+..|...|..    
T Consensus        77 ~~A~~~---------------g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~  141 (212)
T 3rjv_A           77 EKAVEA---------------GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHG  141 (212)
T ss_dssp             HHHHHT---------------TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSS
T ss_pred             HHHHHC---------------CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCC
Confidence            887654               356677778888876    78999999999999987621 236788888888988    


Q ss_pred             cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc-C-----ChhHHHHHHHHHHHcCCCCC
Q 044256          292 FGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE-G-----QIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       292 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~g~~p~  348 (363)
                      .+++++|...|++..+.  +.+...+..+...|... |     ++++|..+|++..+.|...-
T Consensus       142 ~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~A  202 (212)
T 3rjv_A          142 PEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDTG  202 (212)
T ss_dssp             SCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            88999999999999886  23555677777777643 3     89999999999999875433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=4.3e-08  Score=78.81  Aligned_cols=219  Identities=8%  Similarity=-0.050  Sum_probs=146.8

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCcccHHHHHHHH----Hhc---CCh
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG--NIRDASQLVKKMATFGCRPNVTTCDTLITGL----RRT---GNM   75 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~----~~~---~~~   75 (363)
                      ++|+++++.++..  .|.+..+|+.--.++...|  ++++++.+++.++..+ +-+..+|+.-..++    ...   +++
T Consensus        50 ~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           50 ERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             HHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            5788888888886  7767888998888888888  8999999999988874 34555677655555    455   788


Q ss_pred             hHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHH
Q 044256           76 NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVD--QTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELM  153 (363)
Q Consensus        76 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  153 (363)
                      ++++.+++.+.+..       +.|..+|+.-...+.+.|.++  ++++.++++.+..+                      
T Consensus       127 ~~EL~~~~~~l~~~-------pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~----------------------  177 (306)
T 3dra_A          127 YREFDILEAMLSSD-------PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL----------------------  177 (306)
T ss_dssp             HHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT----------------------
T ss_pred             HHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC----------------------
Confidence            89999999998865       677888888877777778777  77777777776532                      


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCC------HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHH-HHHHHHHHh
Q 044256          154 MQRGLNPVIFTYTPLLNGYCLVGK------VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAM-NVSREMILN  226 (363)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~  226 (363)
                            -|-..|+.-...+.+.+.      ++++++.++.+.... +-|...|+.+-..+.+.|+...+. .+..++...
T Consensus       178 ------~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~  250 (306)
T 3dra_A          178 ------KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDL  250 (306)
T ss_dssp             ------TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEG
T ss_pred             ------CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhc
Confidence                  345566655555555554      677777777766653 336667776666666666644432 222222110


Q ss_pred             hHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256          227 GFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      +          ..-+.++..+..+..++.+.|+.++|.++++.+.+
T Consensus       251 ~----------~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          251 E----------KDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             G----------GTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             c----------CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            0          00123455566666666666666667666666654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.20  E-value=9e-08  Score=76.96  Aligned_cols=236  Identities=10%  Similarity=-0.034  Sum_probs=164.3

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC--ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHH--
Q 044256           35 CMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG--NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGL--  110 (363)
Q Consensus        35 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~--  110 (363)
                      .+....++|+.+++.++..+ +-+...|+.--.++...+  ++++++..++.+....       +.+..+|+.--..+  
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-------Pk~y~aW~~R~~iL~~  115 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-------EKNYQIWNYRQLIIGQ  115 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-------TTCCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-------cccHHHHHHHHHHHHH
Confidence            33444579999999999874 334556888888888888  9999999999999865       56677787655555  


Q ss_pred             --Hhc---CCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH--HHHH
Q 044256          111 --CKD---RLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN--VAIA  183 (363)
Q Consensus       111 --~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~  183 (363)
                        ...   +++++++.+++++.+..                            +-+..+|+.-.-.+.+.|.++  +++.
T Consensus       116 ~~~~l~~~~~~~~EL~~~~~~l~~~----------------------------pkny~aW~~R~~vl~~l~~~~~~~EL~  167 (306)
T 3dra_A          116 IMELNNNDFDPYREFDILEAMLSSD----------------------------PKNHHVWSYRKWLVDTFDLHNDAKELS  167 (306)
T ss_dssp             HHHHTTTCCCTHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHhccccCCHHHHHHHHHHHHHhC----------------------------CCCHHHHHHHHHHHHHhcccChHHHHH
Confidence              444   56677777777766542                            345667777777777788887  9999


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCC------hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          184 LFDSMARKGFMPDVFSYSVLINGYCKNFN------VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      .++.+.+.... |...|+.....+...+.      ++++++.+.+++..+             +-|...|+.+-..+.+.
T Consensus       168 ~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-------------p~n~SaW~y~~~ll~~~  233 (306)
T 3dra_A          168 FVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-------------PQNPSTWNYLLGIHERF  233 (306)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-------------SSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-------------CCCccHHHHHHHHHHhc
Confidence            99999887533 66777766666666665      677777777666554             34667787777777777


Q ss_pred             CCHHH-HHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh-CCCCccHHHHHHHH
Q 044256          258 GHVLE-VMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSC-KNLVADVVAYNILI  321 (363)
Q Consensus       258 ~~~~~-a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li  321 (363)
                      |+... +..+..++...+  -+.+...+..+...|.+.|+.++|.++++.+.+ .+ +.....|+..+
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~D-pir~~yW~~~~  300 (306)
T 3dra_A          234 DRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYN-PIRSNFWDYQI  300 (306)
T ss_dssp             TCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-GGGHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccC-hHHHHHHHHHH
Confidence            76443 445666555432  134567777788888888888888888888775 33 34455555443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.20  E-value=1.1e-09  Score=88.26  Aligned_cols=168  Identities=13%  Similarity=-0.075  Sum_probs=136.3

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          159 NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      +.+...+..+...+...|++++|+..|++..+.. +-+...+..+...+.+.|++++|...++++....           
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~-----------  181 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD-----------  181 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG-----------
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh-----------
Confidence            4556677788888999999999999999998873 3366788889999999999999998877765443           


Q ss_pred             CCCCChHHHHHHH-HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC-ccHHH
Q 044256          239 NVVPETFTCNIFI-DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV-ADVVA  316 (363)
Q Consensus       239 ~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~  316 (363)
                         |+........ ..+...++.+.|...+++..... |.+...+..+...+...|++++|...|+++.+.... .+...
T Consensus       182 ---p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          182 ---QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             ---CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             ---cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence               5544333322 33667788888999999998876 777889999999999999999999999999986422 12678


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          317 YNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       317 ~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      +..++..+...|+.++|...|++.+.
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            99999999999999999999988764

>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=99.18  E-value=2.5e-09  Score=96.84  Aligned_cols=185  Identities=9%  Similarity=-0.106  Sum_probs=147.1

Q ss_pred             HhcCChhHHHHHHHHHH--------hccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccC
Q 044256           70 RRTGNMNLTLKLHQEMV--------NGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKT  141 (363)
Q Consensus        70 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  141 (363)
                      ...|++++|++.+++..        +..       +.+...+..+..++.+.|++++|...|++..+..           
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-------p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-----------  463 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-------SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-----------  463 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-------TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-----------
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-------ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-----------
Confidence            67899999999999998        432       5567889999999999999999999999988742           


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHH
Q 044256          142 KLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSR  221 (363)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (363)
                                       +.+...|..+..++...|++++|+..|++..+.. +.+...+..+..++.+.|++++ ...++
T Consensus       464 -----------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~  524 (681)
T 2pzi_A          464 -----------------GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQ  524 (681)
T ss_dssp             -----------------CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHH
T ss_pred             -----------------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHH
Confidence                             3356788888999999999999999999988873 2356778888889999999999 99998


Q ss_pred             HHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCC-------
Q 044256          222 EMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGI-------  294 (363)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-------  294 (363)
                      ++++.+             +.+...|..+..++...|++++|++.|+++.+.. +.+...+..+..++...++       
T Consensus       525 ~al~~~-------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~~~~~~~~~~~~~~~~~~  590 (681)
T 2pzi_A          525 TVWSTN-------------DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTS-RHFTTARLTSAVTLLSGRSTSEVTEE  590 (681)
T ss_dssp             HHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTS-TTHHHHHHHHHHHTC-------CCHH
T ss_pred             HHHHhC-------------CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccC-cccHHHHHHHHHHHHccCCCCCCCHH
Confidence            887765             2456788889999999999999999999998765 5567788888888766554       


Q ss_pred             -hHHHHHHHHHh
Q 044256          295 -FEIASELFNKL  305 (363)
Q Consensus       295 -~~~a~~~~~~~  305 (363)
                       +++|.+.+..+
T Consensus       591 ~~~~A~~~l~~~  602 (681)
T 2pzi_A          591 QIRDAARRVEAL  602 (681)
T ss_dssp             HHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhC
Confidence             45555555444

>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=99.18  E-value=1.1e-09  Score=97.49  Aligned_cols=153  Identities=12%  Similarity=0.005  Sum_probs=111.4

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      +|++++|.+.|+++.+.  .|.+...|..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47899999999999886  77689999999999999999999999999999874 3456788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      .+++..+..       +.+...+..+..++.+.|++++|.+.|++..+...                            .
T Consensus        79 ~~~~al~~~-------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----------------------------~  123 (568)
T 2vsy_A           79 LLQQASDAA-------PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP----------------------------E  123 (568)
T ss_dssp             HHHHHHHHC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------------------------T
T ss_pred             HHHHHHhcC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------------------------C
Confidence            999999864       55678999999999999999999999999887532                            2


Q ss_pred             chhhHHHHHHHHHhc---CCHHHHHHHHHHHHHc
Q 044256          161 VIFTYTPLLNGYCLV---GKVNVAIALFDSMARK  191 (363)
Q Consensus       161 ~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~  191 (363)
                      +...+..+...+...   |+.++|...+++..+.
T Consensus       124 ~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A          124 EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            344566666666666   7777777777766665

>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=99.17  E-value=7.2e-10  Score=82.36  Aligned_cols=164  Identities=13%  Similarity=-0.035  Sum_probs=124.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP  242 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (363)
                      ..+..+...+...|++++|+..|+...+.. +.+...+..+...+...|++++|...++++....              |
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--------------p   71 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--------------Q   71 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--------------C
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--------------C
Confidence            356667788889999999999999877652 2356788888899999999999988777665432              4


Q ss_pred             ChHHHHHHHHH-HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc-cHHHHHHH
Q 044256          243 ETFTCNIFIDG-LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA-DVVAYNIL  320 (363)
Q Consensus       243 ~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  320 (363)
                      +...+...... +...+....|...+++..+.. |.+...+..+..++...|++++|...|+++.+....+ +...+..+
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l  150 (176)
T 2r5s_A           72 DNSYKSLIAKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTF  150 (176)
T ss_dssp             CHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHH
T ss_pred             ChHHHHHHHHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHH
Confidence            33333222211 122233345788899888765 5568899999999999999999999999998874322 35688899


Q ss_pred             HHHHHccCChhHHHHHHHHHHH
Q 044256          321 IHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      ..++...|+.++|...|++.+.
T Consensus       151 ~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          151 MDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcHHHHHHHHHH
Confidence            9999999999999999998765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.17  E-value=5.5e-09  Score=80.96  Aligned_cols=164  Identities=12%  Similarity=-0.023  Sum_probs=115.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-C-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFM-P-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                      .+..+...+.+.|++++|+..|+.+.+.... | ....+..+..+|.+.|++++|+..++++++..              
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--------------   71 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--------------   71 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--------------
Confidence            4455566677788888888888887765211 1 13456667777888888888887777776543              


Q ss_pred             CChH----HHHHHHHHHH------------------hcCCHHHHHHHHHHHHhccCcchHHHH-----------------
Q 044256          242 PETF----TCNIFIDGLC------------------KNGHVLEVMELFPTLEISNCELFVEIF-----------------  282 (363)
Q Consensus       242 ~~~~----~~~~ll~~~~------------------~~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------  282 (363)
                      |+..    .+..+..++.                  ..|++++|...|+++++.. |-+...+                 
T Consensus        72 P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~~~~~~~~~~~  150 (225)
T 2yhc_A           72 PTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLVFLKDRLAKYE  150 (225)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHHHHHHHHHHHH
Confidence            3321    2333333333                  3678999999999998763 3232222                 


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCcc---HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          283 NSLIRGCCKFGIFEIASELFNKLSCKNLVAD---VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       283 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+...|.+.|++++|...|+++.+.. +.+   ...+..+..++.+.|++++|.+.++.+...
T Consensus       151 ~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          151 YSVAEYYTERGAWVAVVNRVEGMLRDY-PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS-TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHHC-cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            345667889999999999999998763 112   356888899999999999999999999875

>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=99.17  E-value=1.8e-09  Score=87.93  Aligned_cols=240  Identities=7%  Similarity=-0.100  Sum_probs=158.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      +|++++|.+++++..+.  .+ ..  +      +...++++.|...|++.               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~--~~-~~--~------~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKY--LK-TS--F------MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHH--HC-CC--S------SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHH--cc-cc--c------cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            37889999999988765  23 11  0      11157888888888765               456778899999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCC
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNP  160 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (363)
                      .|.+..+.....+. ...-..+|+.+..+|.+.|++++|+..|++..+..       ...|+...               
T Consensus        58 ~~~~al~~~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~-------~~~g~~~~---------------  114 (307)
T 2ifu_A           58 AYLQEAEAHANNRS-LFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMY-------VENGTPDT---------------  114 (307)
T ss_dssp             HHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-------HTTTCHHH---------------
T ss_pred             HHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH-------HHcCCHHH---------------
Confidence            99888764311100 01124578888888888899999998888876521       11111111               


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHh
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEM  235 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (363)
                      ...++..+...|.. |++++|+..|++..+.    +..+ ...++..+...|.+.|++++|+..+++.+....       
T Consensus       115 ~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-------  186 (307)
T 2ifu_A          115 AAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYK-------  186 (307)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-------
Confidence            13467778888888 9999999999987654    1111 145778888899999999999999998765431       


Q ss_pred             HhcCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-ch---HHHHHHHHHHHHhcCChHHHHH
Q 044256          236 KLCNVVPE-TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-LF---VEIFNSLIRGCCKFGIFEIASE  300 (363)
Q Consensus       236 ~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~~~~~~~a~~  300 (363)
                       ..+..+. ...+..+..++...|++++|...|++.. .... ++   ......++.++ ..|+.+.+..
T Consensus       187 -~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          187 -EMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             -HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             -HcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence             1111111 2256666777788899999999999988 4210 11   22344555555 5677666655

>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=99.16  E-value=4.7e-10  Score=80.87  Aligned_cols=118  Identities=8%  Similarity=-0.034  Sum_probs=99.6

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |++++|+..+......  .|.++..+..+...|.+.|++++|++.|++.++.. +-+..+|..+..++...|++++|...
T Consensus        11 ~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           11 ADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHH
Confidence            7889999999988775  56567788889999999999999999999999874 44677899999999999999999999


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHH-HHHHHHc
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDL-FMEMKDK  129 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~  129 (363)
                      |+...+..       +.+..+|..+...+.+.|++++|.+. +++..+.
T Consensus        88 ~~~al~~~-------p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l  129 (150)
T 4ga2_A           88 YRRSVELN-------PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL  129 (150)
T ss_dssp             HHHHHHHC-------TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHhC-------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            99999864       45678899999999999998776654 5777664

>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=99.15  E-value=4.1e-10  Score=81.19  Aligned_cols=138  Identities=9%  Similarity=-0.051  Sum_probs=60.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHH
Q 044256          173 CLVGKVNVAIALFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFI  251 (363)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  251 (363)
                      ...|++++|+..+......  .| +...+-.+...|.+.|++++|+..+++.++..             +.+..+|..+.
T Consensus         8 ~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-------------p~~~~a~~~lg   72 (150)
T 4ga2_A            8 RSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-------------ERDPKAHRFLG   72 (150)
T ss_dssp             CCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHH
T ss_pred             HHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHH
Confidence            3344455555554444332  11 22233344444555555555555544444332             12334444455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHH-HHHhhhCCCCccHHHHHHHHHHHHcc
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASEL-FNKLSCKNLVADVVAYNILIHALGKE  327 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~  327 (363)
                      .++...|++++|+..|++..+.. |-+..++..+...|.+.|++++|.+. +++..+.. |-++.+|......+...
T Consensus        73 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~  147 (150)
T 4ga2_A           73 LLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCE  147 (150)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTC
T ss_pred             HHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHh
Confidence            55555555555555555554443 33344455555555555554433332 34444432 22344444333333333

>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=99.15  E-value=4e-10  Score=83.77  Aligned_cols=60  Identities=10%  Similarity=0.047  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHh
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVN   87 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   87 (363)
                      +......+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++.+..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPL   68 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh
Confidence            4444444555555555555555544432 22334445555555555555555555555444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.13  E-value=6.3e-09  Score=83.84  Aligned_cols=168  Identities=12%  Similarity=-0.017  Sum_probs=125.0

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      |.+...+..+...+.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|...++.+...        .|+.
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--------~p~~  184 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--------DQDT  184 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--------GCSH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--------hcch
Confidence            5467778888888888888888888888888763 335567778888888888888888888887764        3443


Q ss_pred             hhHHH-HHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          101 FCYGS-LIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       101 ~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ..... ....+.+.++.+.|...+++.....                            +.+...+..+...+...|+++
T Consensus       185 ~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~----------------------------P~~~~~~~~la~~l~~~g~~~  236 (287)
T 3qou_A          185 RYQGLVAQIELLXQAADTPEIQQLQQQVAEN----------------------------PEDAALATQLALQLHQVGRNE  236 (287)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhhcccCccHHHHHHHHhcC----------------------------CccHHHHHHHHHHHHHcccHH
Confidence            32222 2233555666666676666666531                            345778889999999999999


Q ss_pred             HHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 044256          180 VAIALFDSMARKGFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMIL  225 (363)
Q Consensus       180 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (363)
                      +|+..|.++.+..... +...+..+...+...|+.++|...+++.+.
T Consensus       237 ~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          237 EALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999998874221 266889999999999999999988877543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.12  E-value=3.8e-08  Score=85.31  Aligned_cols=104  Identities=10%  Similarity=0.060  Sum_probs=72.0

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCC-hhHHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGN-MNLTLKL   81 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~   81 (363)
                      +++.|..+|+.++..  .| .              |+++.+..+|++.+..  .|+...|...+....+.+. .+....+
T Consensus        10 ~i~~aR~vyer~l~~--~P-~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~   70 (493)
T 2uy1_A           10 ELSSPSAIMEHARRL--YM-S--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEV   70 (493)
T ss_dssp             --CCHHHHHHHHHHH--HH-T--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHH
T ss_pred             chHHHHHHHHHHHHH--CC-C--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHH
Confidence            377788888888775  56 3              7899999999998875  5788888888877776663 4567778


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHH----hcCCHHHHHHHHHHHHHc
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLC----KDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~  129 (363)
                      |+.....-+.    -+.+...|...+..+.    ..++.+.+..+|++.+..
T Consensus        71 fe~al~~vg~----d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           71 YEFTLGQFEN----YWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             HHHHHHHSTT----CTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHcCC----CcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC
Confidence            8877764210    1345677877776654    245677888888888763

>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=1e-08  Score=79.42  Aligned_cols=185  Identities=12%  Similarity=0.025  Sum_probs=122.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ++..+..+...+.+.|++++|+..|+++.+.  .|+.    ..+..+..++.+.|++++|+..|+++.+..       +.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-------P~   73 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-------PT   73 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-------cC
Confidence            4567777888899999999999999999876  3432    467778899999999999999999999854       22


Q ss_pred             ch---hhHHHHHHHHHh------------------cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcC
Q 044256           99 NV---FCYGSLIDGLCK------------------DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRG  157 (363)
Q Consensus        99 ~~---~~~~~ll~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  157 (363)
                      +.   ..+..+..++..                  .|++++|...|+++.+..+.....       ..+...+..+... 
T Consensus        74 ~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a-------~~a~~~l~~~~~~-  145 (225)
T 2yhc_A           74 HPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYT-------TDATKRLVFLKDR-  145 (225)
T ss_dssp             CTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTH-------HHHHHHHHHHHHH-
T ss_pred             CCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhH-------HHHHHHHHHHHHH-
Confidence            22   234444444443                  455666666666666543221110       1111111111100 


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          158 LNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMP--DVFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       158 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                         .......+...|.+.|+++.|+..|+.+.+.....  ....+..+..++.+.|++++|...++.+...+
T Consensus       146 ---~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          146 ---LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               00112345677889999999999999998873211  12467788899999999999998888776553

>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=99.10  E-value=9e-09  Score=83.85  Aligned_cols=163  Identities=7%  Similarity=-0.101  Sum_probs=82.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC-CC
Q 044256          170 NGYCLVGKVNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV-PE  243 (363)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~  243 (363)
                      ..|...|++++|...|.+..+.    +-.+ -..+|..+...|...|++++|+..+++.+...     ..   .+-. ..
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~-----~~---~g~~~~~  115 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMY-----VE---NGTPDTA  115 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-----HT---TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH-----HH---cCCHHHH
Confidence            4455566666666666554432    1000 12345555566666666666666666554321     11   1100 01


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-----chHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CCCcc-
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-----LFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NLVAD-  313 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  313 (363)
                      ..++..+..+|.. |++++|+..|++.......     ....++..+...|...|++++|...|++....    +..+. 
T Consensus       116 a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  194 (307)
T 2ifu_A          116 AMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTC  194 (307)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHH
Confidence            2345555555655 6666666666665543100     01345556666666666666666666665542    11111 


Q ss_pred             HHHHHHHHHHHHccCChhHHHHHHHHHH
Q 044256          314 VVAYNILIHALGKEGQIKKENYLLLSME  341 (363)
Q Consensus       314 ~~~~~~li~~~~~~g~~~~a~~~~~~m~  341 (363)
                      ...+..+..++...|++++|...|++.+
T Consensus       195 ~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          195 YKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            1244444555555666666666666665

>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=99.09  E-value=3.8e-09  Score=93.91  Aligned_cols=163  Identities=8%  Similarity=-0.071  Sum_probs=118.6

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHH
Q 044256          140 KTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNV  219 (363)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  219 (363)
                      .|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999888764 3457788889999999999999999999988863 33577888889999999999999999


Q ss_pred             HHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc---CChH
Q 044256          220 SREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF---GIFE  296 (363)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~  296 (363)
                      +++..+..             +.+...+..+..++...|++++|.+.+++..+.. +.+...+..+..++...   |+++
T Consensus        80 ~~~al~~~-------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~  145 (568)
T 2vsy_A           80 LQQASDAA-------------PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALD  145 (568)
T ss_dssp             HHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHHHhcC-------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHH
Confidence            88887654             2356788889999999999999999999998875 55678888999999999   9999


Q ss_pred             HHHHHHHHhhhCCCCccHHHHHH
Q 044256          297 IASELFNKLSCKNLVADVVAYNI  319 (363)
Q Consensus       297 ~a~~~~~~~~~~~~~~~~~~~~~  319 (363)
                      +|.+.+++..+.+ +.+...|..
T Consensus       146 ~A~~~~~~al~~~-p~~~~~~~~  167 (568)
T 2vsy_A          146 VLSAQVRAAVAQG-VGAVEPFAF  167 (568)
T ss_dssp             HHHHHHHHHHHHT-CCCSCHHHH
T ss_pred             HHHHHHHHHHhcC-CcccChHHH
Confidence            9999999998875 233344443

>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=99.08  E-value=3.1e-09  Score=78.96  Aligned_cols=121  Identities=12%  Similarity=0.069  Sum_probs=101.9

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHH-HHhcCCh--hH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITG-LRRTGNM--NL   77 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~-~~~~~~~--~~   77 (363)
                      .|++++|...|+...+.  .|.++..|..+...+...|++++|+..|++..+.. +.+...+..+..+ +...|++  ++
T Consensus        23 ~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             ----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             ccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            37889999999999887  67688999999999999999999999999998774 3456677788888 7788998  99


Q ss_pred             HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256           78 TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        78 a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                      |...++.+.+..       +.+...+..+..++...|++++|...|++..+...
T Consensus       100 A~~~~~~al~~~-------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A          100 TRAMIDKALALD-------SNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-------CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            999999999864       55678888999999999999999999999987643

>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=99.08  E-value=3.8e-08  Score=75.39  Aligned_cols=174  Identities=9%  Similarity=-0.139  Sum_probs=133.0

Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHc
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQR  156 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  156 (363)
                      +|.+.|++..+.         -++..+..+...|...+++++|...|++..+.+                          
T Consensus         4 eA~~~~~~aa~~---------g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g--------------------------   48 (212)
T 3rjv_A            4 EPGSQYQQQAEA---------GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG--------------------------   48 (212)
T ss_dssp             CTTHHHHHHHHT---------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--------------------------
T ss_pred             hHHHHHHHHHHC---------CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC--------------------------
Confidence            466777777763         356778888888888889998888888877642                          


Q ss_pred             CCCCchhhHHHHHHHHHhcC----CHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHhhH
Q 044256          157 GLNPVIFTYTPLLNGYCLVG----KVNVAIALFDSMARKGFMPDVFSYSVLINGYCK----NFNVEEAMNVSREMILNGF  228 (363)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  228 (363)
                          +...+..|...|.. +    ++++|..+|+...+.|   +...+..|...|..    .+++++|+..+++....+ 
T Consensus        49 ----~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~-  119 (212)
T 3rjv_A           49 ----DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDS-  119 (212)
T ss_dssp             ----CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSST-
T ss_pred             ----CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcC-
Confidence                34566667777777 6    8999999999988765   56677777777776    789999998888776554 


Q ss_pred             HHHHHHhHhcCCCCC---hHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc-C-----Ch
Q 044256          229 KKIFNEMKLCNVVPE---TFTCNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF-G-----IF  295 (363)
Q Consensus       229 ~~~~~~~~~~~~~~~---~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~-----~~  295 (363)
                                   ++   ...+..|...|..    .+++++|+..|++..+.  +.+...+..|...|... |     ++
T Consensus       120 -------------~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~  184 (212)
T 3rjv_A          120 -------------ESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNK  184 (212)
T ss_dssp             -------------TSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCH
T ss_pred             -------------CCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCH
Confidence                         42   6677788888887    78899999999999876  23455677777777653 3     89


Q ss_pred             HHHHHHHHHhhhCC
Q 044256          296 EIASELFNKLSCKN  309 (363)
Q Consensus       296 ~~a~~~~~~~~~~~  309 (363)
                      ++|...|+...+.|
T Consensus       185 ~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          185 QKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcC
Confidence            99999999998876

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.06  E-value=4.9e-09  Score=75.22  Aligned_cols=104  Identities=12%  Similarity=-0.047  Sum_probs=93.3

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           19 YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ..|.++..+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|+..|++..+..       +.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-------P~  102 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-------KN  102 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------SS
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-------CC
Confidence            456678889999999999999999999999999874 4467789999999999999999999999999965       56


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      +...|..+..++.+.|++++|...|++..+..
T Consensus       103 ~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          103 DYTPVFHTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            68899999999999999999999999998864

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.06  E-value=3.9e-07  Score=78.96  Aligned_cols=309  Identities=9%  Similarity=-0.059  Sum_probs=172.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCC-HHHHHHHHHHHHhc-CCC-CCcccHHHHHHHHH----hcCC
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGN-IRDASQLVKKMATF-GCR-PNVTTCDTLITGLR----RTGN   74 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~-~~~-~~~~~~~~l~~~~~----~~~~   74 (363)
                      |+++.|..+|++.+..  .| +...|...+....+.+. .+....+|+..+.. |.. ++...|...+..+.    ..++
T Consensus        28 ~~~e~~~~iferal~~--~p-s~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~  104 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SY-NLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTR  104 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CC-CHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CC-CHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHH
Confidence            6789999999999986  68 99999999998888774 46677888887764 433 35567777766543    2456


Q ss_pred             hhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh-------------cCCHHHHHHHHHHHHHc--CCCcch----
Q 044256           75 MNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK-------------DRLVDQTKDLFMEMKDK--GINANT----  135 (363)
Q Consensus        75 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------------~~~~~~a~~~~~~~~~~--~~~~~~----  135 (363)
                      .+.+..+|+..+...      ...-...|......-..             .+.+..|..+++++...  +.....    
T Consensus       105 ~~~vR~iy~rAL~~P------~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y  178 (493)
T 2uy1_A          105 IEKIRNGYMRALQTP------MGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARL  178 (493)
T ss_dssp             HHHHHHHHHHHHTSC------CTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHH
T ss_pred             HHHHHHHHHHHHhCh------hhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHH
Confidence            788999999998732      11112223222211100             01122233333332221  000000    


Q ss_pred             -hhhcc--------CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHH----
Q 044256          136 -LLCKK--------TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSV----  202 (363)
Q Consensus       136 -~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----  202 (363)
                       -+...        +..+.+..++++++... +.+...|...+..+.+.|+.+.|..++++....  +.+...+..    
T Consensus       179 ~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~  255 (493)
T 2uy1_A          179 IDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLV  255 (493)
T ss_dssp             HHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHH
T ss_pred             HHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhh
Confidence             00010        01234556677766643 344566766777777778888888888877766  223222221    


Q ss_pred             ------------------------------------HHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHH
Q 044256          203 ------------------------------------LINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFT  246 (363)
Q Consensus       203 ------------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (363)
                                                          .+....+.+..+.|.            .++... .. ...+...
T Consensus       256 ~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR------------~i~~~A-~~-~~~~~~v  321 (493)
T 2uy1_A          256 MDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFR------------KLFIEL-GN-EGVGPHV  321 (493)
T ss_dssp             TTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHH------------HHHHHH-TT-SCCCHHH
T ss_pred             cchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHH------------HHHHHh-hC-CCCChHH
Confidence                                                111111222222222            333333 11 1123333


Q ss_pred             HHHHHHHHHh-cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          247 CNIFIDGLCK-NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       247 ~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      |......-.. .++++.|..+|+...+.- +.++..+...+....+.|+.+.|..+|+.+.     .....|...+..-.
T Consensus       322 ~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~  395 (493)
T 2uy1_A          322 FIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEF  395 (493)
T ss_dssp             HHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence            4322222222 235788888888877652 3334455666676677788888888888873     25677777777667


Q ss_pred             ccCChhHHHHHHHHHHH
Q 044256          326 KEGQIKKENYLLLSMEE  342 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~  342 (363)
                      ..|+.+.+..+++++.+
T Consensus       396 ~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          396 MVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHSCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            77888888888887764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.05  E-value=7.3e-09  Score=72.04  Aligned_cols=110  Identities=8%  Similarity=-0.084  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      ..+......|.+.|++++|++.|++.++.. |.+..+|..+..+|.+.|++++|...+++..+.+ +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            467778889999999999999999999876 7788999999999999999999999999999875 55788999999999


Q ss_pred             HccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          325 GKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       325 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      ...|++++|.+.|++.++  +.|+......-+.-
T Consensus        92 ~~~~~~~~A~~~~~~al~--l~P~~~~a~~~l~~  123 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ--VDPSNEEAREGVRN  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH--HCcCCHHHHHHHHH
Confidence            999999999999999998  56765554444433

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.02  E-value=3.3e-09  Score=76.15  Aligned_cols=102  Identities=13%  Similarity=-0.019  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      ..+..+...+...|++++|+..|+++.... |.++..|..+..+|...|++++|...|++..... +.++..|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            355566666777777777777777777665 5566777777777777777777777777777654 34566777777777


Q ss_pred             HccCChhHHHHHHHHHHHcCCCCCHH
Q 044256          325 GKEGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       325 ~~~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      ...|++++|...|++.++.  .|+..
T Consensus       115 ~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            7777777777777777763  45543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=7e-09  Score=72.13  Aligned_cols=103  Identities=9%  Similarity=-0.024  Sum_probs=92.5

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           19 YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      +.|..+..+......+.+.|++++|++.|++.++.. +.+...|..+..++.+.|++++|+..|++.++..       +.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-------p~   79 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-------SK   79 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-------hh
Confidence            567567889999999999999999999999998875 4567889999999999999999999999999865       56


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      +...|..+..++...|++++|.+.|++..+.
T Consensus        80 ~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           80 FIKGYIRKAACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6889999999999999999999999999875

>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=98.98  E-value=7e-08  Score=73.88  Aligned_cols=128  Identities=10%  Similarity=-0.143  Sum_probs=99.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      .+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...+++.....             +.+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------------~~~   70 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-------------KHL   70 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------ccc
Confidence            34556677778889999988887763    4577788888888888899999988888776543             245


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc----------------hHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL----------------FVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ...+..+..++...|++++|...|++..+.. +.                ....+..+..+|...|++++|.+.|++..+
T Consensus        71 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           71 AVAYFQRGMLYYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6678888888888899999999888887643 22                236778888888889999999999988887


Q ss_pred             CC
Q 044256          308 KN  309 (363)
Q Consensus       308 ~~  309 (363)
                      ..
T Consensus       150 ~~  151 (213)
T 1hh8_A          150 MK  151 (213)
T ss_dssp             TC
T ss_pred             cC
Confidence            64

>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=98.97  E-value=8.3e-08  Score=73.46  Aligned_cols=144  Identities=9%  Similarity=-0.121  Sum_probs=113.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      ...+..+...+...|++++|+..|++..    .|+...|..+..++...|++++|...|+...+..       +.+...|
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------~~~~~~~   74 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-------KHLAVAY   74 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------ccchHHH
Confidence            3456677888899999999999998874    6688899999999999999999999999999864       5667889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-hhhccCChHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcCCHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANT-LLCKKTKLVEANRLLELMMQRGLNP-VIFTYTPLLNGYCLVGKVNVA  181 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a  181 (363)
                      ..+..++...|++++|...|++..+....... .+...+.              ...| ....+..+..++.+.|++++|
T Consensus        75 ~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~l~~~~~~~g~~~~A  140 (213)
T 1hh8_A           75 FQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGL--------------QFKLFACEVLYNIAFMYAKKEEWKKA  140 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTB--------------CCEEEHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhcc--------------ccCccchHHHHHHHHHHHHccCHHHH
Confidence            99999999999999999999999875322110 0000000              0111 236778888999999999999


Q ss_pred             HHHHHHHHHcC
Q 044256          182 IALFDSMARKG  192 (363)
Q Consensus       182 ~~~~~~~~~~~  192 (363)
                      ...|+...+..
T Consensus       141 ~~~~~~al~~~  151 (213)
T 1hh8_A          141 EEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHcC
Confidence            99999988874

>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=98.97  E-value=5.3e-08  Score=71.19  Aligned_cols=131  Identities=9%  Similarity=-0.048  Sum_probs=105.5

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      ...+..+...+...|++++|...+++.....             +.+...+..+..++...|++++|...+++..... +
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~   78 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-------------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-K   78 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-c
Confidence            3456667778888999999998888877654             2456788888899999999999999999998875 6


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH--HHHHHccCChhHHHHHHHHHHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL--IHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+...+..+..++...|++++|...++++.... +.+...+..+  ...+...|++++|...+.....
T Consensus        79 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           79 KYIKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            678889999999999999999999999998764 3355555433  4447788999999999887654

>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=98.96  E-value=1.5e-08  Score=75.29  Aligned_cols=134  Identities=8%  Similarity=-0.009  Sum_probs=105.2

Q ss_pred             HhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHH
Q 044256          208 CKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIR  287 (363)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  287 (363)
                      ...|++++|...+++.....             +.+...+..+...|...|++++|...|+++.... +.+...+..+..
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~   86 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-------------PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALAT   86 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-------------CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHhC-------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            45788888988888776654             3456788889999999999999999999998875 557788888888


Q ss_pred             H-HHhcCCh--HHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          288 G-CCKFGIF--EIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       288 ~-~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      + +...|++  ++|...++++.... +.+...+..+...+...|++++|...|++..+.  .|+......++..
T Consensus        87 ~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~  157 (177)
T 2e2e_A           87 VLYYQASQHMTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL--NSPRINRTQLVES  157 (177)
T ss_dssp             HHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CCTTSCHHHHHHH
T ss_pred             HHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh--CCCCccHHHHHHH
Confidence            8 8899998  99999999998874 446888889999999999999999999999984  4544333344433

>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=98.95  E-value=4.4e-09  Score=75.50  Aligned_cols=112  Identities=8%  Similarity=-0.073  Sum_probs=96.6

Q ss_pred             HHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHh
Q 044256            8 LMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVN   87 (363)
Q Consensus         8 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   87 (363)
                      -..|+.+.+.  .|.+...+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|+..|+....
T Consensus         7 ~~~~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   83 (148)
T 2vgx_A            7 GGTIAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV   83 (148)
T ss_dssp             CCSHHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3456666654  66678889999999999999999999999998874 44677888999999999999999999999998


Q ss_pred             ccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           88 GMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ..       +.+...+..+..++...|++++|...|++..+.
T Consensus        84 l~-------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           84 MD-------IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HS-------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cC-------CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            64       556788999999999999999999999998875

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.94  E-value=1.3e-08  Score=79.93  Aligned_cols=186  Identities=5%  Similarity=-0.204  Sum_probs=137.3

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHH-------HHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--------------
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSL-------IKGFCMEGNIRDASQLVKKMATFGCRPNVT--------------   60 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--------------   60 (363)
                      ++.+.|.+.|..+.+.  .|.....|..+       ...+.+.++..+++..+..-..  +.|+..              
T Consensus        20 ~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           20 MSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             CCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            6889999999999997  88789999999       6777777777777777766554  233211              


Q ss_pred             --------cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 044256           61 --------TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGIN  132 (363)
Q Consensus        61 --------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  132 (363)
                              .+..+...+...|++++|.++|+.+...+        |+......+...+.+.+++++|+..|+......  
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--------p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--  165 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--------SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP--  165 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--------CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS--
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--------CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC--
Confidence                    12335677888999999999999888743        433366666678889999999999987443210  


Q ss_pred             cchhhhccCChHHHHHHHHHHHHcCCCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc--HhHHHHHHHHHH
Q 044256          133 ANTLLCKKTKLVEANRLLELMMQRGLNP--VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD--VFSYSVLINGYC  208 (363)
Q Consensus       133 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~  208 (363)
                                                .|  ....+..+..++...|++++|+..|++.......|.  .........++.
T Consensus       166 --------------------------d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~  219 (282)
T 4f3v_A          166 --------------------------DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARR  219 (282)
T ss_dssp             --------------------------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHH
T ss_pred             --------------------------CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHH
Confidence                                      11  123677788899999999999999999875433243  335566667788


Q ss_pred             hcCChhHHHHHHHHHHHhh
Q 044256          209 KNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~  227 (363)
                      +.|+.++|..+|+++...+
T Consensus       220 ~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          220 SQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHTCHHHHHHHHHHHHHHS
T ss_pred             HcCCHHHHHHHHHHHHhcC
Confidence            9999999999998887764

>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=98.92  E-value=3.1e-09  Score=87.67  Aligned_cols=114  Identities=8%  Similarity=-0.045  Sum_probs=66.7

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----------------ccHHHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----------------TTCDTLIT   67 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------------~~~~~l~~   67 (363)
                      +++|...|+...+.  .|.+...|..+...+.+.|++++|+..|++.++..  |+.                .+|..+..
T Consensus       129 ~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          129 FEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHHH
Confidence            34444444444333  34366778888888888888888888888888763  333                44555555


Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           68 GLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        68 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      ++.+.|++++|+..+++.++..       +.+...|..+..++...|++++|...|++..+
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555555555555555532       33444555555555555555555555555444

>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=98.90  E-value=2.5e-06  Score=69.47  Aligned_cols=184  Identities=9%  Similarity=-0.072  Sum_probs=125.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-ChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      ++.+-....+.+..++|++++++++..+ +-+..+|+.--.++...+ .+++++..++.+....       +.+..+|+.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-------PKny~aW~h  128 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-------LKSYQVWHH  128 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-------CCCHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-------CCcHHHHHH
Confidence            4444444455556678999999998874 334556788777777778 5899999999999865       667788887


Q ss_pred             HHHHHHhc-C-CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH----
Q 044256          106 LIDGLCKD-R-LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN----  179 (363)
Q Consensus       106 ll~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~----  179 (363)
                      -..++.+. + ++++++++++++.+..                            +-|-.+|+.-.-.+.+.|.++    
T Consensus       129 R~wlL~~l~~~~~~~EL~~~~k~L~~d----------------------------pkNy~AW~~R~wvl~~l~~~~~~~~  180 (349)
T 3q7a_A          129 RLLLLDRISPQDPVSEIEYIHGSLLPD----------------------------PKNYHTWAYLHWLYSHFSTLGRISE  180 (349)
T ss_dssp             HHHHHHHHCCSCCHHHHHHHHHHTSSC----------------------------TTCHHHHHHHHHHHHHHHHTTCCCH
T ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHhC----------------------------CCCHHHHHHHHHHHHHhccccccch
Confidence            77777666 6 7777777777776542                            224455554444444444444    


Q ss_pred             ----HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC-------hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH
Q 044256          180 ----VAIALFDSMARKGFMPDVFSYSVLINGYCKNFN-------VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN  248 (363)
Q Consensus       180 ----~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (363)
                          ++++.++++.+..+ -|...|+.....+.+.++       ++++++.+.+++...             +-|...|+
T Consensus       181 ~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-------------P~n~SaW~  246 (349)
T 3q7a_A          181 AQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-------------PHNVSAWN  246 (349)
T ss_dssp             HHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-------------TTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-------------CCCHHHHH
Confidence                88888888888743 377788887777777765       567777777666554             34667777


Q ss_pred             HHHHHHHhcCCH
Q 044256          249 IFIDGLCKNGHV  260 (363)
Q Consensus       249 ~ll~~~~~~~~~  260 (363)
                      .+-..+.+.|+.
T Consensus       247 Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          247 YLRGFLKHFSLP  258 (349)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHhcCCC
Confidence            766666665543

>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=1.9e-06  Score=69.48  Aligned_cols=173  Identities=10%  Similarity=-0.004  Sum_probs=122.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhcc
Q 044256           65 LITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN----VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKK  140 (363)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  140 (363)
                      .+..+...|++++|...+++..+...     ..|+    ...+..+...+...+++++|+..+++..+.......     
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~-----  150 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEE-----YHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGID-----  150 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCC-----CCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSC-----
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhcccc-----CChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhccccc-----
Confidence            46677889999999999999987431     1222    123445667777778899999998888864221110     


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCc-HhHHHHHHHHHHhcCChh
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK-----GFMPD-VFSYSVLINGYCKNFNVE  214 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~l~~~~~~~~~~~  214 (363)
                                       ..-...+++.+...|...|++++|...|+++.+.     +..+. ..++..+...|.+.|+++
T Consensus       151 -----------------~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~  213 (293)
T 3u3w_A          151 -----------------VYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYE  213 (293)
T ss_dssp             -----------------TTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             -----------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHH
Confidence                             0001336889999999999999999999988742     11222 347788889999999999


Q ss_pred             HHHHHHHHHHHhhHHHHHHHhHhcCCCCC-hHHHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 044256          215 EAMNVSREMILNGFKKIFNEMKLCNVVPE-TFTCNIFIDGLCKNGH-VLEVMELFPTLEI  272 (363)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~  272 (363)
                      +|...+++.+...        ...+..+. ..+|..+..++.+.|+ +++|.+.+++...
T Consensus       214 ~A~~~~~~al~~~--------~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          214 ESLYQVNKAIEIS--------CRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHH--------HHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--------HHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            9999998876432        12222222 5678888888999994 6999998888764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.90  E-value=7.3e-08  Score=73.09  Aligned_cols=159  Identities=11%  Similarity=-0.094  Sum_probs=70.2

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC-CChHHHHHHHHH
Q 044256          175 VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV-PETFTCNIFIDG  253 (363)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ll~~  253 (363)
                      .|++++|.++++.+... .......+..+...+...|++++|...+++.....        ...+.. ....++..+...
T Consensus         5 ~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------~~~~~~~~~~~~~~~l~~~   75 (203)
T 3gw4_A            5 AHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQA--------QKSGDHTAEHRALHQVGMV   75 (203)
T ss_dssp             --CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------HTTCCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH--------HHcCCcHHHHHHHHHHHHH
Confidence            44555555533332221 11233344444455555555555555554443211        011111 122344445555


Q ss_pred             HHhcCCHHHHHHHHHHHHhc----c-Cc-chHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CCC-ccHHHHHHHHH
Q 044256          254 LCKNGHVLEVMELFPTLEIS----N-CE-LFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NLV-ADVVAYNILIH  322 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~----~-~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~  322 (363)
                      +...|++++|...+++....    + .+ .....+..+...+...|++++|...+++....    +.. .-..++..+..
T Consensus        76 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  155 (203)
T 3gw4_A           76 ERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGD  155 (203)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence            55556666655555554432    1 00 12234455555555566666666655554421    100 01223344555


Q ss_pred             HHHccCChhHHHHHHHHHHH
Q 044256          323 ALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+...|++++|...+++..+
T Consensus       156 ~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          156 LAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHH
Confidence            55566666666666655543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.90  E-value=1.1e-07  Score=65.69  Aligned_cols=116  Identities=16%  Similarity=0.063  Sum_probs=95.9

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      ...+..+...+...|++++|.+.++++.... +.+..++..+...+...|++++|...++++.... +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4677888889999999999999999998775 5667889999999999999999999999998764 4578889999999


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhc
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  362 (363)
                      +...|++++|...++++.+.. +.+...+..+-..+.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            999999999999999998852 23445555555554443

>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=98.89  E-value=5e-08  Score=67.82  Aligned_cols=114  Identities=11%  Similarity=-0.069  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      ...+..+...+...|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++..+.. +.+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3467777888999999999999999999876 6678999999999999999999999999999875 4578899999999


Q ss_pred             HHccCChhHHHHHHHHHHHcC----CCCCHHHHHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEENG----CALDVDTFNTLMISF  359 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g----~~p~~~~~~~ll~~~  359 (363)
                      +...|++++|...|++..+..    -.|+.......+..+
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHH
Confidence            999999999999999998742    117766665555544

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.89  E-value=8.3e-08  Score=70.14  Aligned_cols=131  Identities=8%  Similarity=-0.089  Sum_probs=102.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..+..       +.+...
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-------~~~~~~   83 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-------KKYIKG   83 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------cccHHH
Confidence            45678888889999999999999999988764 4467788889999999999999999999999864       556788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhH--HHHHHHHHhcCCHHH
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTY--TPLLNGYCLVGKVNV  180 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~~~~~  180 (363)
                      |..+..++...|++++|...|++..+...                            .+...+  ..+...+...|++++
T Consensus        84 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~p----------------------------~~~~~~~~~~~~~~~~~~~~~~~  135 (166)
T 1a17_A           84 YYRRAASNMALGKFRAALRDYETVVKVKP----------------------------HDKDAKMKYQECNKIVKQKAFER  135 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST----------------------------TCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC----------------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999999999999886522                            122233  333344666788888


Q ss_pred             HHHHHHHHH
Q 044256          181 AIALFDSMA  189 (363)
Q Consensus       181 a~~~~~~~~  189 (363)
                      |...+....
T Consensus       136 A~~~~~~~~  144 (166)
T 1a17_A          136 AIAGDEHKR  144 (166)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHcccchH
Confidence            888877654

>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=98.88  E-value=2.4e-07  Score=74.30  Aligned_cols=100  Identities=12%  Similarity=-0.060  Sum_probs=70.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      +...+..+...+.+.|++++|...|++..+..                            +.+...|..+..+|.+.|++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~----------------------------p~~~~~~~~la~~~~~~~~~   54 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN----------------------------PLVAVYYTNRALCYLKMQQP   54 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------------SCCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------------------CccHHHHHHHHHHHHHhcCH
Confidence            45677788888899999999999999888752                            22455666677777777777


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhh
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNG  227 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (363)
                      ++|+..++...+.. +.+...+..+..++...|++++|...+++....+
T Consensus        55 ~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  102 (281)
T 2c2l_A           55 EQALADCRRALELD-GQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLA  102 (281)
T ss_dssp             HHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            77777777766652 2245566666677777777777777776665543

>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=98.88  E-value=4.3e-08  Score=78.62  Aligned_cols=189  Identities=6%  Similarity=-0.109  Sum_probs=127.0

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchh
Q 044256           22 LNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVF  101 (363)
Q Consensus        22 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  101 (363)
                      .+...+..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...++...+..       +.+..
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------p~~~~   73 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-------GQSVK   73 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-------TTCHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------CCCHH
Confidence            367888999999999999999999999998873 3367788889999999999999999999999864       55678


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch----hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256          102 CYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT----LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus       102 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      .+..+..++...|++++|...|++..+..+....    .........++.. +........+.+......+. .+ ..|+
T Consensus        74 ~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~~~l~-~l-~~~~  150 (281)
T 2c2l_A           74 AHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR-WNSIEERRIHQESELHSYLT-RL-IAAE  150 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHH-HHHHHHTCCCCCCHHHHHHH-HH-HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHHHHHHH-HHHHHHHHHhhhHHHHHHHH-HH-HHHH
Confidence            8999999999999999999999998765321111    1111111111111 22223333344444444333 23 2688


Q ss_pred             HHHHHHHHHHHHHcCCCCcHh-HHHHHHHHHHhc-CChhHHHHHHHHH
Q 044256          178 VNVAIALFDSMARKGFMPDVF-SYSVLINGYCKN-FNVEEAMNVSREM  223 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-~~~~~a~~~~~~~  223 (363)
                      .++|.+.++...+.  .|+.. ....+-..+.+. +.+++|..+|..+
T Consensus       151 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a  196 (281)
T 2c2l_A          151 RERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQV  196 (281)
T ss_dssp             HHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            89999888877665  44443 333333333333 5567776666554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.88  E-value=1.2e-07  Score=66.02  Aligned_cols=117  Identities=11%  Similarity=-0.072  Sum_probs=64.2

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc
Q 044256          198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL  277 (363)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  277 (363)
                      ..+..+...+...|++++|...+++.....             +.+...+..+...+...|++++|...+++..... +.
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~   78 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-------------PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PA   78 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-------------CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-cc
Confidence            344455555555666666665555544332             1234455555556666666666666666665543 33


Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCC
Q 044256          278 FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQ  329 (363)
Q Consensus       278 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  329 (363)
                      +...+..+...+...|++++|...|++..... +.+...+..+..++.+.|+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           79 YSKAYGRMGLALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            45555566666666666666666666655542 2344555555555555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.88  E-value=1.4e-07  Score=64.99  Aligned_cols=115  Identities=18%  Similarity=0.102  Sum_probs=90.5

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      ...+..+...+...|++++|...++++....             +.+...+..+...+...|++++|...++++.... +
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~   74 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-------------PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-P   74 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------------cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-C
Confidence            4567777888888999999988888776543             2356678888889999999999999999998765 5


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGK  326 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  326 (363)
                      .+..++..+...+...|++++|...++++.... +.+...+..+...+..
T Consensus        75 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           75 NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            567888899999999999999999999988764 3456666665555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.87  E-value=1e-07  Score=75.01  Aligned_cols=131  Identities=11%  Similarity=-0.026  Sum_probs=91.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch--
Q 044256          201 SVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF--  278 (363)
Q Consensus       201 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--  278 (363)
                      ..+...+...|++++|.++|..+...+              |+......+...+.+.+++++|+..|+...... .|.  
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~--------------p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAG--------------SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTT--------------CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcC--------------CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence            345566777888888876666554322              443344455567778888999888888665432 221  


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc--cHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA--DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  348 (363)
                      ...+..+..++...|++++|+..|++.......|  ....+.....++.+.|+.++|..+|+++..  ..|+
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~  240 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPE  240 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCc
Confidence            3467778888888899999999888887543214  344666677788888999999999998888  4566

>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=98.87  E-value=3.6e-06  Score=68.47  Aligned_cols=171  Identities=9%  Similarity=-0.090  Sum_probs=128.2

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhc-C-ChhHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG-NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRT-G-NMNLTLK   80 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~   80 (363)
                      .++|+++++.++..  .|.+..+|+.--.++...| .+++++.+++.++... +-+..+|+.-..++.+. + ++++++.
T Consensus        70 se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           70 SERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             SHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            46799999999987  7778889999999998888 5999999999999875 44667888887777776 6 8899999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVD--------QTKDLFMEMKDKGINANTLLCKKTKLVEANRLLEL  152 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  152 (363)
                      +++.+.+..       +.|..+|+.-...+.+.|.++        ++++.++++.+.                       
T Consensus       147 ~~~k~L~~d-------pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~-----------------------  196 (349)
T 3q7a_A          147 YIHGSLLPD-------PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV-----------------------  196 (349)
T ss_dssp             HHHHHTSSC-------TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH-----------------------
T ss_pred             HHHHHHHhC-------CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh-----------------------
Confidence            999999865       667888887666665555444        555555555543                       


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCC-------HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh
Q 044256          153 MMQRGLNPVIFTYTPLLNGYCLVGK-------VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNV  213 (363)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  213 (363)
                          . +-|...|+.....+.+.+.       ++++++.+++..... +-|...|+.+-..+.+.|+.
T Consensus       197 ----d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          197 ----D-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             ----C-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCC
T ss_pred             ----C-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCC
Confidence                2 3356677777777777665       678888888877763 34777787776666666654

>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=98.87  E-value=8.3e-08  Score=79.09  Aligned_cols=131  Identities=11%  Similarity=-0.104  Sum_probs=109.6

Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC----------------hHHHHHHHHHHHhcCC
Q 044256          196 DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE----------------TFTCNIFIDGLCKNGH  259 (363)
Q Consensus       196 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~  259 (363)
                      +...+..+...+.+.|++++|+..|++.+...              |+                ...|..+..++.+.|+
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--------------p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~  211 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--------------EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQA  211 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--------------TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--------------hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            34567777777888888888888888776653              33                3788899999999999


Q ss_pred             HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH-HHHHH
Q 044256          260 VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE-NYLLL  338 (363)
Q Consensus       260 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~~  338 (363)
                      +++|+..++++.+.. +.+...+..+..+|...|++++|...|+++.+.. +.+...+..+..++.+.|++++| ...|+
T Consensus       212 ~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~  289 (336)
T 1p5q_A          212 FSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYA  289 (336)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999886 6678899999999999999999999999999874 45788899999999999999988 45667


Q ss_pred             HHHH
Q 044256          339 SMEE  342 (363)
Q Consensus       339 ~m~~  342 (363)
                      .|..
T Consensus       290 ~~~~  293 (336)
T 1p5q_A          290 NMFE  293 (336)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.86  E-value=1.3e-06  Score=70.47  Aligned_cols=177  Identities=9%  Similarity=0.010  Sum_probs=122.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ...+...+..+...|++++|.+.+++..+.......          .            ......+..+...+...|+++
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~----------~------------~~~~~~~~~~~~~~~~~~~~~  132 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPE----------F------------QQFLQWQYYVAAYVLKKVDYE  132 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHH----------H------------HHHHHHHHHHHHHHHTSSCHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChh----------H------------HHHHHHHHHHHHHHhcCCCHH
Confidence            445556677778888888888888777664221100          0            001123344666778889999


Q ss_pred             HHHHHHHHHHHcCC---CCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC--ChHHHHHHHH
Q 044256          180 VAIALFDSMARKGF---MPD--VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP--ETFTCNIFID  252 (363)
Q Consensus       180 ~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ll~  252 (363)
                      +|...+++..+...   .+.  ..+++.+...|...|++++|...++++....     +.   .+..+  ...++..+..
T Consensus       133 ~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~-----~~---~~~~~~~~~~~~~nlg~  204 (293)
T 2qfc_A          133 YCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQL-----EA---LHDNEEFDVKVRYNHAK  204 (293)
T ss_dssp             HHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----HH---SCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-----Hh---cCccccchHHHHHhHHH
Confidence            99999998875421   111  4478888999999999999999998876321     11   11011  1257888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccC-----cchHHHHHHHHHHHHhcCChHHH-HHHHHHhh
Q 044256          253 GLCKNGHVLEVMELFPTLEISNC-----ELFVEIFNSLIRGCCKFGIFEIA-SELFNKLS  306 (363)
Q Consensus       253 ~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~a-~~~~~~~~  306 (363)
                      .|...|++++|+..+++..+...     ..-..+|..+..+|...|++++| ...+++..
T Consensus       205 ~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          205 ALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            99999999999999999875420     11267788899999999999999 77777765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.85  E-value=5.1e-08  Score=65.93  Aligned_cols=104  Identities=11%  Similarity=-0.082  Sum_probs=90.3

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC-
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP-   98 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-   98 (363)
                      .|.+...|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+..       +. 
T Consensus         2 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-------~~~   73 (112)
T 2kck_A            2 VDQNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-------EDE   73 (112)
T ss_dssp             CCSSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-------CCT
T ss_pred             CCCcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------ccc
Confidence            45577889999999999999999999999998874 4466788889999999999999999999999864       44 


Q ss_pred             -chhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCC
Q 044256           99 -NVFCYGSLIDGLCKD-RLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        99 -~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~  131 (363)
                       +...+..+..++.+. |++++|.+.+++......
T Consensus        74 ~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           74 YNKDVWAAKADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             TCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             chHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhccc
Confidence             678899999999999 999999999999987644

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.84  E-value=2.5e-08  Score=75.68  Aligned_cols=166  Identities=7%  Similarity=-0.120  Sum_probs=117.7

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CcccHHHHHHHHHhcCCh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF----GCRP-NVTTCDTLITGLRRTGNM   75 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~~~~   75 (363)
                      .|++++|.+.++.+...  .+....++..+...+...|++++|...+++....    +..| ...++..+...+...|++
T Consensus         5 ~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            5 AHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             --CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            48899999966666542  3347788999999999999999999999998763    1111 234677888899999999


Q ss_pred             hHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHH
Q 044256           76 NLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQ  155 (363)
Q Consensus        76 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  155 (363)
                      ++|...+++..+.....+........++..+...+...|++++|...+++..+..                       ..
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------~~  139 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYA-----------------------QQ  139 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-----------------------HH
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-----------------------Hh
Confidence            9999999988775211000001124567888889999999999999998876521                       01


Q ss_pred             cCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          156 RGLN-PVIFTYTPLLNGYCLVGKVNVAIALFDSMARK  191 (363)
Q Consensus       156 ~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (363)
                      .+.+ .-..++..+...+...|++++|...+++..+.
T Consensus       140 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          140 ADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            1100 11234677788888999999999888876543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.84  E-value=3.2e-07  Score=74.08  Aligned_cols=171  Identities=10%  Similarity=-0.076  Sum_probs=124.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-H----hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHh
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD-V----FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKL  237 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (363)
                      ..+...+..+...|++++|...+....+...... .    ..+..+...+...|++++|+..+++.....        ..
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--------~~  147 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQ--------LT  147 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTC--------CC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH--------hc
Confidence            3455667888899999999999988877532211 1    223345556778899999998887765321        00


Q ss_pred             cCCCCC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---c-Ccc--hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          238 CNVVPE--TFTCNIFIDGLCKNGHVLEVMELFPTLEIS---N-CEL--FVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       238 ~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~-~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                       ...+.  ..+++.+...|...|++++|...++++.+.   . ..+  ...++..+...|...|++++|...+++.....
T Consensus       148 -~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~  226 (293)
T 2qfc_A          148 -GIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS  226 (293)
T ss_dssp             -SSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -CCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence             11111  347888999999999999999999998732   1 111  22688899999999999999999999887531


Q ss_pred             ----CC-ccHHHHHHHHHHHHccCChhHH-HHHHHHHHH
Q 044256          310 ----LV-ADVVAYNILIHALGKEGQIKKE-NYLLLSMEE  342 (363)
Q Consensus       310 ----~~-~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~~  342 (363)
                          .. .-..+|..+..+|.+.|++++| ...+++...
T Consensus       227 ~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          227 CRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence                11 1267888899999999999999 777887653

>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=98.84  E-value=1.2e-07  Score=76.64  Aligned_cols=167  Identities=5%  Similarity=-0.106  Sum_probs=119.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CCc----ccHHHHHHHHHh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLND----VTFNSLIKGFCMEGNIRDASQLVKKMATFGCR-PNV----TTCDTLITGLRR   71 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~----~~~~~l~~~~~~   71 (363)
                      .|++++|...++.........++.    ..+..+...+...+++++|+..|++....... ++.    .+++.+..+|..
T Consensus        88 ~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~  167 (293)
T 3u3w_A           88 QKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAE  167 (293)
T ss_dssp             TTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHH
Confidence            378999999999998752221121    13445777788888999999999999875322 221    258889999999


Q ss_pred             cCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHH
Q 044256           72 TGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLE  151 (363)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  151 (363)
                      .|++++|...|+++.+.....+...+....++..+...|.+.|++++|...+++..+..                     
T Consensus       168 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~---------------------  226 (293)
T 3u3w_A          168 NGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS---------------------  226 (293)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------------
T ss_pred             cCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------------------
Confidence            99999999999999853211100012234588899999999999999999999877531                     


Q ss_pred             HHHHcCCCC-chhhHHHHHHHHHhcCC-HHHHHHHHHHHHH
Q 044256          152 LMMQRGLNP-VIFTYTPLLNGYCLVGK-VNVAIALFDSMAR  190 (363)
Q Consensus       152 ~~~~~~~~~-~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~  190 (363)
                        .+.+..+ -..+|..+..++.+.|+ +++|...+++...
T Consensus       227 --~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          227 --CRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             --HHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             --HHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence              1111112 25678888889999994 6999998887654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.84  E-value=1.4e-07  Score=65.94  Aligned_cols=102  Identities=11%  Similarity=0.034  Sum_probs=89.5

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.++..|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+..       +.+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-------~~~   83 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-------PTF   83 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-------CCc
Confidence            34478889999999999999999999999998764 3467788889999999999999999999999864       556


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ...+..+..++.+.|++++|...|++..+.
T Consensus        84 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           84 IKGYTRKAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            788999999999999999999999998865

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.83  E-value=1.3e-07  Score=66.19  Aligned_cols=58  Identities=17%  Similarity=0.121  Sum_probs=23.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSRE  222 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (363)
                      .+..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...+++
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~   75 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEE   75 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            33344444444444444444444443331 11333333333444444444444443333

>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=98.83  E-value=4.6e-08  Score=70.15  Aligned_cols=99  Identities=11%  Similarity=0.062  Sum_probs=88.0

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      +...+..+...+...|++++|+..|+.+.... +.+...|..+..+|...|++++|...|+++.... +.+...|..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            34566777888999999999999999998876 6688899999999999999999999999999874 457788999999


Q ss_pred             HHHccCChhHHHHHHHHHHHc
Q 044256          323 ALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ++...|++++|...|++.++.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999999874

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.83  E-value=6e-08  Score=69.04  Aligned_cols=102  Identities=9%  Similarity=-0.111  Sum_probs=90.0

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.+...+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|...|+......       +.+
T Consensus        14 ~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------p~~   85 (142)
T 2xcb_A           14 SEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-------INE   85 (142)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             CHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-------CCC
Confidence            56567788889999999999999999999998874 4467788889999999999999999999999865       566


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ...+..+..++...|++++|...|++..+.
T Consensus        86 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           86 PRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             THHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            788899999999999999999999998865

>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=98.80  E-value=1.3e-05  Score=64.99  Aligned_cols=167  Identities=7%  Similarity=-0.052  Sum_probs=116.5

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCC
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGN----------IRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGN   74 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~   74 (363)
                      ++|+++++.++..  .|.+..+|+.--.++...+.          +++++.+++.+.... +-+..+|+.-..++.+.++
T Consensus        47 ~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~  123 (331)
T 3dss_A           47 ESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  123 (331)
T ss_dssp             HHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCc
Confidence            4788888888886  77677788877666655544          678888888888764 4467788887777777774


Q ss_pred             --hhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHH
Q 044256           75 --MNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRL-VDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLE  151 (363)
Q Consensus        75 --~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  151 (363)
                        +++++.+++.+.+..       +.|..+|+.-...+...|. ++++++.++++.+..+                    
T Consensus       124 ~~~~~EL~~~~k~l~~d-------prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p--------------------  176 (331)
T 3dss_A          124 PNWARELELCARFLEAD-------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF--------------------  176 (331)
T ss_dssp             CCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS--------------------
T ss_pred             ccHHHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC--------------------
Confidence              788999999998875       6778888877777777777 5778888877776533                    


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLV--------------GKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKN  210 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  210 (363)
                              -|...|+.....+.+.              +.++++++.++...... +-|...|+.+-..+.+.
T Consensus       177 --------~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          177 --------SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             --------CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSS
T ss_pred             --------CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence                    2444555444444333              34678888888777663 33666776555444443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.79  E-value=5.8e-08  Score=69.13  Aligned_cols=98  Identities=10%  Similarity=-0.001  Sum_probs=86.8

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA  323 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  323 (363)
                      ...+..+...+...|++++|...|+.+.... +.+...|..+..+|...|++++|...|++..... +.++..|..+..+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            3456667778889999999999999999876 6688899999999999999999999999999875 5577888899999


Q ss_pred             HHccCChhHHHHHHHHHHHc
Q 044256          324 LGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +...|++++|...|++.++.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999874

>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=98.79  E-value=1.5e-07  Score=65.49  Aligned_cols=108  Identities=9%  Similarity=-0.038  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC--CCcc----HHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN--LVAD----VVAYN  318 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~  318 (363)
                      ..+..+...+.+.|++++|+..|++.++.. |.+...|..+..+|...|++++|++.+++..+..  ..++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            467778889999999999999999999876 6678899999999999999999999999987642  1111    24677


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      .+..++...|++++|++.|++.++  ..||..+...|
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~~l  122 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHHHH
Confidence            788899999999999999999988  46777766554

>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=98.78  E-value=1.4e-07  Score=65.45  Aligned_cols=99  Identities=7%  Similarity=-0.031  Sum_probs=87.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ++..|..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|+..++...+..       +.+...
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-------p~~~~~   74 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-------PNFVRA   74 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------CCcHHH
Confidence            56788889999999999999999999998874 4467788999999999999999999999999865       556788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      |..+..++...|++++|...|++..+.
T Consensus        75 ~~~lg~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           75 YIRKATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCHHHHHHHHHHHHHh
Confidence            999999999999999999999998865

>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=98.78  E-value=3e-07  Score=62.62  Aligned_cols=105  Identities=9%  Similarity=-0.080  Sum_probs=89.9

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      ....+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..... +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            34567778888999999999999999998775 5678889999999999999999999999998874 446888999999


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCCCCHHH
Q 044256          323 ALGKEGQIKKENYLLLSMEENGCALDVDT  351 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  351 (363)
                      ++...|++++|...+++..+.  .|+...
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~  107 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH--EANNPQ  107 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHc--CCCCHH
Confidence            999999999999999999874  455433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.77  E-value=4.4e-07  Score=63.09  Aligned_cols=117  Identities=15%  Similarity=0.009  Sum_probs=97.3

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .+...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..... +.+...+..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            345677788889999999999999999998775 5578889999999999999999999999998864 45688899999


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          322 HALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      .++...|++++|...|++..+.. +.+...+..+..++.+
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~  126 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELK  126 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHH
Confidence            99999999999999999999852 2355666666665544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=4.3e-07  Score=66.29  Aligned_cols=102  Identities=7%  Similarity=-0.084  Sum_probs=89.8

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .+.++..|..+...+.+.|++++|+..|++.++.. +.+...|..+..++...|++++|+..|++.++..       +.+
T Consensus         7 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------p~~   78 (164)
T 3sz7_A            7 PTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-------PKY   78 (164)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             hhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------CCC
Confidence            34467789999999999999999999999998874 3467788999999999999999999999999865       556


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ...|..+..++...|++++|...|++..+.
T Consensus        79 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           79 SKAWSRLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            888999999999999999999999998875

>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=98.72  E-value=2.1e-07  Score=65.58  Aligned_cols=100  Identities=12%  Similarity=-0.102  Sum_probs=90.0

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .+...+..+...+...|++++|...|+...... +.+...+..+..++...|++++|...+++..... +.+...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            466788889999999999999999999998876 6678899999999999999999999999999875 45788999999


Q ss_pred             HHHHccCChhHHHHHHHHHHHc
Q 044256          322 HALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999998874

>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=98.72  E-value=1.3e-06  Score=59.30  Aligned_cols=110  Identities=12%  Similarity=-0.075  Sum_probs=78.2

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      ...+..+...+...|++++|...+++.....             +.+...+..+...+...|++++|...+++..... +
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~   69 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-------------PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-P   69 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-------------CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-c
Confidence            4456666777777888888887777766543             2355667777777888888888888888887764 4


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .+...+..+..++...|++++|.+.+++..+.. +.+...+..+.
T Consensus        70 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  113 (118)
T 1elw_A           70 DWGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQ  113 (118)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            567777888888888888888888888887764 33444444433

>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=98.72  E-value=1.3e-07  Score=65.84  Aligned_cols=106  Identities=9%  Similarity=0.018  Sum_probs=83.0

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      ...++..+...+.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|+..++..++..+........-..+
T Consensus         7 ~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            7 AAIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            45678889999999999999999999999874 44567889999999999999999999999987541100000001236


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      |..+..++...|++++|++.|++....
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            777788888899999999999888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.71  E-value=3.5e-07  Score=61.67  Aligned_cols=99  Identities=10%  Similarity=-0.037  Sum_probs=87.6

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc--cHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA--DVVAYNIL  320 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  320 (363)
                      +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            44567778888999999999999999998875 5677889999999999999999999999999874 44  68889999


Q ss_pred             HHHHHcc-CChhHHHHHHHHHHHc
Q 044256          321 IHALGKE-GQIKKENYLLLSMEEN  343 (363)
Q Consensus       321 i~~~~~~-g~~~~a~~~~~~m~~~  343 (363)
                      ..++... |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            9999999 9999999999999885

>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=98.71  E-value=4.3e-07  Score=63.94  Aligned_cols=102  Identities=6%  Similarity=-0.136  Sum_probs=90.2

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      .|.++..|..+...+...|++++|+..|++..... +.+...|..+..++...|++++|...++...+..       +.+
T Consensus         5 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------p~~   76 (137)
T 3q49_B            5 KSPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-------GQS   76 (137)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             ccccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------chh
Confidence            44478899999999999999999999999998874 4457788999999999999999999999999865       556


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ...+..+..++...|++++|...|++..+.
T Consensus        77 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           77 VKAHFFLGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            889999999999999999999999998764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.69  E-value=9.4e-07  Score=64.48  Aligned_cols=99  Identities=11%  Similarity=-0.097  Sum_probs=89.2

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      +...+..+...+...|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++..+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45577888889999999999999999999876 6678899999999999999999999999999875 457889999999


Q ss_pred             HHHccCChhHHHHHHHHHHHc
Q 044256          323 ALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       323 ~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ++...|++++|...|++.++.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999999885

>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=98.69  E-value=4.8e-07  Score=62.91  Aligned_cols=112  Identities=11%  Similarity=0.006  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC--Ccc----HHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL--VAD----VVAY  317 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  317 (363)
                      ...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++++.....  .++    ..+|
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3467778888999999999999999998875 66788899999999999999999999999887531  112    7788


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          318 NILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       318 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      ..+..++...|++++|...|++..+.  .|+......+-..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  121 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHH
Confidence            88999999999999999999999984  5666555554443

>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=98.68  E-value=4.7e-08  Score=73.99  Aligned_cols=98  Identities=12%  Similarity=0.028  Sum_probs=53.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----------------ccHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----------------TTCDTLITGLRRTGNMNLTLKLHQEMV   86 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~   86 (363)
                      ....+..+...+.+.|++++|+..|++..+.. +.+.                ..|..+..++...|++++|+..++...
T Consensus        37 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al  115 (198)
T 2fbn_A           37 SAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVL  115 (198)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34556666777777777777777777776542 1111                344444555555555555555555555


Q ss_pred             hccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           87 NGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      +..       +.+...+..+..++...|++++|...|++..+
T Consensus       116 ~~~-------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          116 KID-------KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HHS-------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhC-------cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            432       33344455555555555555555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.68  E-value=1e-06  Score=62.82  Aligned_cols=111  Identities=14%  Similarity=0.004  Sum_probs=91.9

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch---HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF---VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYN  318 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  318 (363)
                      .+...+..+...+...|++++|...|++..+.. +.+   ...+..+..+|...|++++|...+++..... +.+...|.
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD-ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc-ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            355677888889999999999999999998764 333   6788899999999999999999999998864 44788889


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM  356 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  356 (363)
                      .+..++...|++++|...|++..+.  .|+.......+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l  139 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL--EPKNKVFQEAL  139 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--CSSCHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHH
Confidence            9999999999999999999999984  56544443433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.67  E-value=2.6e-07  Score=63.60  Aligned_cols=99  Identities=12%  Similarity=-0.101  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALG  325 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  325 (363)
                      .+..+...+.+.|++++|+..++++.+.. +.+...|..+..++...|++++|...|++..+.. +.+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            35556778889999999999999999876 6688899999999999999999999999999875 447888999999999


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCC
Q 044256          326 KEGQIKKENYLLLSMEENGCALD  348 (363)
Q Consensus       326 ~~g~~~~a~~~~~~m~~~g~~p~  348 (363)
                      ..|++++|...+++.++  ..|+
T Consensus        97 ~~g~~~~A~~~~~~al~--~~P~  117 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL--SQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC------
T ss_pred             HcCCHHHHHHHHHHHHH--hCcC
Confidence            99999999999999987  4454

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.64  E-value=1.4e-05  Score=68.35  Aligned_cols=217  Identities=8%  Similarity=-0.046  Sum_probs=145.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHH
Q 044256          107 IDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFD  186 (363)
Q Consensus       107 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  186 (363)
                      ...+.+.|++++|++.|.++.+............+.........+           ..+..+...|...|++++|.+.+.
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------~al~~l~~~y~~~~~~~~a~~~~~   79 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQE-----------TSILELGQLYVTMGAKDKLREFIP   79 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHH-----------HHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHH-----------HHHHHHHHHHHHCCCHHHHHHHHH
Confidence            455677889999999998888765443332222222222222111           235678899999999999999998


Q ss_pred             HHHHc-CCCCcHh----HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCH
Q 044256          187 SMARK-GFMPDVF----SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       187 ~~~~~-~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~  260 (363)
                      .+... +..++..    +.+.+-..+...|+++.|..++.......        ...+..+ -..++..+...+...|++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~~~~~~la~~~~~~g~~  151 (434)
T 4b4t_Q           80 HSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFA--------KREKRVFLKHSLSIKLATLHYQKKQY  151 (434)
T ss_dssp             HTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHH--------HHSSCCSSHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH--------HHhCccHHHHHHHHHHHHHHHHccCh
Confidence            87653 1112221    22233334445789999999888765432        1222222 245778889999999999


Q ss_pred             HHHHHHHHHHHhcc-----CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CCCcc--HHHHHHHHHHHHccCC
Q 044256          261 LEVMELFPTLEISN-----CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NLVAD--VVAYNILIHALGKEGQ  329 (363)
Q Consensus       261 ~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~  329 (363)
                      ++|..+++.+...-     -+....++..++..|...|++++|..++++....    +.++.  ...+..+...+...|+
T Consensus       152 ~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  231 (434)
T 4b4t_Q          152 KDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKD  231 (434)
T ss_dssp             HHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHh
Confidence            99999999876431     1233567889999999999999999999987642    21222  3456666777888999


Q ss_pred             hhHHHHHHHHHHH
Q 044256          330 IKKENYLLLSMEE  342 (363)
Q Consensus       330 ~~~a~~~~~~m~~  342 (363)
                      +++|...|.+..+
T Consensus       232 y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          232 YKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998887764

>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=98.64  E-value=8.5e-07  Score=66.98  Aligned_cols=161  Identities=14%  Similarity=0.036  Sum_probs=104.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC---------
Q 044256          172 YCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP---------  242 (363)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~---------  242 (363)
                      ....|+++.+.+.++.-... .......+..+...+...|++++|+..+++.+....        ......         
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~--------~~~~~~~~~~~~~~~   84 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFI--------HTEEWDDQILLDKKK   84 (198)
T ss_dssp             --------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTT--------TCTTCCCHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh--------cccccchhhHHHHHH
Confidence            33445555555555422211 011334566677778888999999888887765320        000000         


Q ss_pred             --ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          243 --ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       243 --~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                        ....+..+..++...|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+
T Consensus        85 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  162 (198)
T 2fbn_A           85 NIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSY  162 (198)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHH
Confidence              02678888899999999999999999999875 6678899999999999999999999999998864 4467788888


Q ss_pred             HHHHHccCChhHHH-HHHHHHHHc
Q 044256          321 IHALGKEGQIKKEN-YLLLSMEEN  343 (363)
Q Consensus       321 i~~~~~~g~~~~a~-~~~~~m~~~  343 (363)
                      ..++...++.+++. ..+..|...
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          163 ELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcc
Confidence            88888888877777 566666554

>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=98.64  E-value=6.9e-07  Score=62.10  Aligned_cols=106  Identities=10%  Similarity=-0.054  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcch
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELF  278 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  278 (363)
                      .+..+...+...|++++|...+++.....             +.+...+..+...+...|++++|...++++.... +.+
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~   71 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-------------PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-REN   71 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------------CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-ccc
Confidence            34444455555555555555555544332             1234445555555555566666666665555432 111


Q ss_pred             -------HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHH
Q 044256          279 -------VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNIL  320 (363)
Q Consensus       279 -------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  320 (363)
                             ..++..+..++...|++++|.+.|+++.+.  .|+...+..+
T Consensus        72 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l  118 (131)
T 1elr_A           72 REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (131)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence                   445556666666666666666666666654  2344444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.64  E-value=1.2e-06  Score=74.88  Aligned_cols=201  Identities=5%  Similarity=-0.098  Sum_probs=136.5

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCc---------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCcc----c
Q 044256            2 SKVLGALMAFGSFIRRCYRPLN---------------DVTFNSLIKGFCMEGNIRDASQLVKKMATFG-CRPNVT----T   61 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~----~   61 (363)
                      |++++|++.|..+.+......+               ..++..+...|...|++++|.+.+..+...- ..++..    +
T Consensus        18 ~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   97 (434)
T 4b4t_Q           18 KQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVL   97 (434)
T ss_dssp             TCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHH
Confidence            7899999999999886322211               1247889999999999999999999876531 112211    2


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccC
Q 044256           62 CDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKT  141 (363)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  141 (363)
                      .+.+...+...|+.+.+..+++........... ...-..++..+...+...|++++|..++++....-...+.      
T Consensus        98 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~------  170 (434)
T 4b4t_Q           98 KTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKR-VFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD------  170 (434)
T ss_dssp             HHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSC-CSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC------
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc------
Confidence            233334445668899999999887754321110 1222557788999999999999999999988653111110      


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCc--HhHHHHHHHHHHhcCChhH
Q 044256          142 KLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMPD--VFSYSVLINGYCKNFNVEE  215 (363)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~  215 (363)
                                      .+....++..++..|...|++++|..+++.....    +.++.  ...+..+...+...+++++
T Consensus       171 ----------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~  234 (434)
T 4b4t_Q          171 ----------------KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKT  234 (434)
T ss_dssp             ----------------STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHH
T ss_pred             ----------------chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHH
Confidence                            1122457888889999999999999999876543    21222  2345556666778899999


Q ss_pred             HHHHHHHHHH
Q 044256          216 AMNVSREMIL  225 (363)
Q Consensus       216 a~~~~~~~~~  225 (363)
                      |...+.+...
T Consensus       235 A~~~~~~a~~  244 (434)
T 4b4t_Q          235 AFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9888876643

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.61  E-value=9.6e-07  Score=64.28  Aligned_cols=111  Identities=8%  Similarity=-0.046  Sum_probs=92.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhc------------------cCcchHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEIS------------------NCELFVEIFNSLIRGCCKFGIFEIASELFNKL  305 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  305 (363)
                      ...+......+.+.|++++|+..|.+....                  . +.+..+|..+..+|.+.|++++|...+++.
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELD-RKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHH-HTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHH-HHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            345677788899999999999999998875                  2 344578899999999999999999999999


Q ss_pred             hhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHH
Q 044256          306 SCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVD-TFNTLMIS  358 (363)
Q Consensus       306 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~  358 (363)
                      .... +.+...|..+..++...|++++|...|++.++  +.|+.. .....+..
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~l~~  140 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR--NHPAAASVVAREMKI  140 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHH
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh--cCCCCHHHHHHHHHH
Confidence            9875 55788999999999999999999999999998  467655 54444433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=2.4e-06  Score=60.84  Aligned_cols=97  Identities=10%  Similarity=-0.100  Sum_probs=46.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc----HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHh
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD----VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKL  237 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (363)
                      ...+..+...+...|+++.|...|+...+.  .|+    ...+..+..+|...|++++|...+++.....          
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~----------   95 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD----------   95 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT----------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC----------
Confidence            444555555555666666666666655543  344    3344444444455555555554444443322          


Q ss_pred             cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256          238 CNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS  273 (363)
Q Consensus       238 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  273 (363)
                         +.+...+..+..++...|++++|...|++....
T Consensus        96 ---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           96 ---GGDVKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             ---SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ---ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence               112334444444444445555555544444433

>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=98.60  E-value=0.00013  Score=59.02  Aligned_cols=233  Identities=9%  Similarity=-0.030  Sum_probs=146.2

Q ss_pred             hhhHHHHHHHH---HhcCCHH-HHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCC----------hhHHHHHHHHHHhc
Q 044256           24 DVTFNSLIKGF---CMEGNIR-DASQLVKKMATFGCRPN-VTTCDTLITGLRRTGN----------MNLTLKLHQEMVNG   88 (363)
Q Consensus        24 ~~~~~~li~~~---~~~~~~~-~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~   88 (363)
                      ...|..+...+   .+.|.+. +|+.+++.++..+  |+ ..+|+.--.++...+.          +++++.+++.+...
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~  103 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV  103 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh
Confidence            44455444433   4556654 8999999999864  44 4456655444443333          67889999999886


Q ss_pred             cCCCCCccCCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHH
Q 044256           89 MGDFGGIYKPNVFCYGSLIDGLCKDR--LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYT  166 (363)
Q Consensus        89 ~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (363)
                      .       +.+..+|+.-..++.+.+  .+++++.+++++.+..                            +-|-.+|+
T Consensus       104 ~-------PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d----------------------------prNy~AW~  148 (331)
T 3dss_A          104 N-------PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD----------------------------ERNFHCWD  148 (331)
T ss_dssp             C-------TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC----------------------------TTCHHHHH
T ss_pred             C-------CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC----------------------------CCCHHHHH
Confidence            5       677888988877777777  4788888888887653                            33566777


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc--------------CChhHHHHHHHHHHHhhHHHH
Q 044256          167 PLLNGYCLVGK-VNVAIALFDSMARKGFMPDVFSYSVLINGYCKN--------------FNVEEAMNVSREMILNGFKKI  231 (363)
Q Consensus       167 ~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~  231 (363)
                      .-.-.+...|. ++++++.++.+.+..+ -|...|+.....+.+.              +.++++++.+.+.+...    
T Consensus       149 ~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~----  223 (331)
T 3dss_A          149 YRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD----  223 (331)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS----
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC----
Confidence            76666777787 6899999999988753 3777777766655544              44677777777766654    


Q ss_pred             HHHhHhcCCCCChHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhccCcchHHHHHHHHH---HHHhcCChHH
Q 044256          232 FNEMKLCNVVPETFTCNIFIDGLCKN-----------GHVLEVMELFPTLEISNCELFVEIFNSLIR---GCCKFGIFEI  297 (363)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~---~~~~~~~~~~  297 (363)
                               +-|...|+.+-..+.+.           +.++++++.++++.+.. |-+...+..++.   .....|..++
T Consensus       224 ---------P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~-pd~~w~l~~~~~~~~~~~~~~~~~~  293 (331)
T 3dss_A          224 ---------PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE-PENKWCLLTIILLMRALDPLLYEKE  293 (331)
T ss_dssp             ---------TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCTTTTHHH
T ss_pred             ---------CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC-cccchHHHHHHHHHHhhcccccHHH
Confidence                     34566676555444443           23566666666666553 222222211111   1112344555


Q ss_pred             HHHHHHHhhhC
Q 044256          298 ASELFNKLSCK  308 (363)
Q Consensus       298 a~~~~~~~~~~  308 (363)
                      +...+.++.+.
T Consensus       294 ~~~~l~~l~~~  304 (331)
T 3dss_A          294 TLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.59  E-value=4.7e-07  Score=62.26  Aligned_cols=97  Identities=5%  Similarity=-0.126  Sum_probs=83.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ..+..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..|++..+..       +.+...+.
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-------P~~~~~~~   89 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-------PKDIAVHA   89 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------CCCHHHHH
Confidence            346677888999999999999999999874 4467788899999999999999999999999864       55678899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .+..++.+.|++++|...+++..+.
T Consensus        90 ~la~~~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           90 ALAVSHTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999998764

>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=98.59  E-value=3.9e-07  Score=78.78  Aligned_cols=115  Identities=8%  Similarity=0.004  Sum_probs=94.5

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|++.|+++.+.  .|.+..+|..+..++.+.|++++|+..+++..+.. +.+..+|..+..++...|++++|.+
T Consensus        19 ~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           19 AKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            47899999999999997  77689999999999999999999999999999874 3456788999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHH--HHhcCCHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDG--LCKDRLVDQTKDLFME  125 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~  125 (363)
                      .|++..+..       +.+...+..+..+  +.+.|++++|++.+++
T Consensus        96 ~~~~al~~~-------p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           96 DYETVVKVK-------PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHS-------TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHhC-------CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999864       3445566666666  8888999999999883

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.56  E-value=2.9e-07  Score=62.94  Aligned_cols=104  Identities=11%  Similarity=0.076  Sum_probs=79.1

Q ss_pred             hcCCHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHH
Q 044256          256 KNGHVLEVMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKE  333 (363)
Q Consensus       256 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  333 (363)
                      ..|++++|+..|++..+.+  -+.+..++..+..+|...|++++|...|++..+.. +-+...+..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            3588999999999998763  25567788999999999999999999999998874 44688888999999999999999


Q ss_pred             HHHHHHHHHc-CCCCCHHHHHHHHHHHh
Q 044256          334 NYLLLSMEEN-GCALDVDTFNTLMISFL  360 (363)
Q Consensus       334 ~~~~~~m~~~-g~~p~~~~~~~ll~~~~  360 (363)
                      ...+++.++. .-.|+...|...+..|.
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            9999998875 22334444555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.54  E-value=3.1e-07  Score=62.82  Aligned_cols=88  Identities=11%  Similarity=-0.020  Sum_probs=73.4

Q ss_pred             ChhhhhHHHHHHHHHHcCC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCY-RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|++++|+..|+.+++.+. .|.++.+|..+..++...|++++|+..|++..+.. +-+...+..+..++...|++++|.
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            4789999999999998531 25577889999999999999999999999999874 445678888999999999999999


Q ss_pred             HHHHHHHhcc
Q 044256           80 KLHQEMVNGM   89 (363)
Q Consensus        80 ~~~~~~~~~~   89 (363)
                      ..+++.....
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999998864

>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=98.54  E-value=1.3e-07  Score=81.48  Aligned_cols=147  Identities=7%  Similarity=-0.091  Sum_probs=112.1

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----------------cccHHHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN----------------VTTCDTLIT   67 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~l~~   67 (363)
                      +++|...|+...+.  .|.....|..+...+.+.|++++|+..|++.++..  |+                ...|..+..
T Consensus       250 ~~~A~~~~~~~~~~--~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~  325 (457)
T 1kt0_A          250 FEKAKESWEMDTKE--KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAM  325 (457)
T ss_dssp             EECCCCGGGSCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhcCHHH--HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHH
Confidence            34455555444433  34367789999999999999999999999998763  33                467888999


Q ss_pred             HHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHH
Q 044256           68 GLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEAN  147 (363)
Q Consensus        68 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~  147 (363)
                      ++.+.|++++|+..++++++..       +.+...|..+..+|...|++++|...|++..+..                 
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~-------p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-----------------  381 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLD-------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-----------------  381 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----------------
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-----------------
Confidence            9999999999999999999865       5578889999999999999999999999988642                 


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH-HHHHHH
Q 044256          148 RLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA-LFDSMA  189 (363)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~-~~~~~~  189 (363)
                                 +.+...+..+..++.+.++.+++.+ .+..|.
T Consensus       382 -----------P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          382 -----------PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -----------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                       2244577778888888888777654 344443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.53  E-value=3e-06  Score=61.22  Aligned_cols=139  Identities=14%  Similarity=-0.034  Sum_probs=100.2

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc---
Q 044256          198 FSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN---  274 (363)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---  274 (363)
                      .++..+...+...|++++|...+++......     ..  ........++..+...+...|++++|...+++.....   
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-----~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~   82 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK-----EF--GDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQL   82 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-----HH--TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH-----Hh--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            4566677778888888888888887764321     10  0000112467778888999999999999999876542   


Q ss_pred             -Cc-chHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----CCC-ccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          275 -CE-LFVEIFNSLIRGCCKFGIFEIASELFNKLSCK----NLV-ADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       275 -~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                       .+ ....++..+...+...|++++|.+.+++....    +.. .....+..+...+...|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           83 KDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence             11 12456788889999999999999999987643    211 12456777888899999999999999988763

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.52  E-value=3.8e-06  Score=58.27  Aligned_cols=100  Identities=16%  Similarity=0.033  Sum_probs=82.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCcchH---HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc---HHHHHHHH
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTLEISNCELFV---EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD---VVAYNILI  321 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li  321 (363)
                      ..+...+...|++++|...|+.+.+.. +.+.   ..+..+..++...|++++|...|+++.... +.+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            345667888999999999999998764 3334   578888999999999999999999998864 223   67788888


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCCHHH
Q 044256          322 HALGKEGQIKKENYLLLSMEENGCALDVDT  351 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  351 (363)
                      .++...|++++|...|+++.+.  .|+...
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~--~p~~~~  111 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ--YPGSDA  111 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTSHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCChH
Confidence            9999999999999999999985  455443

>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=98.52  E-value=2e-06  Score=74.08  Aligned_cols=130  Identities=11%  Similarity=-0.119  Sum_probs=105.2

Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC----------------hHHHHHHHHHHHhcCCH
Q 044256          197 VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE----------------TFTCNIFIDGLCKNGHV  260 (363)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~  260 (363)
                      ...+..+...+.+.|++++|...|++.+...              |+                ...|..+..+|.+.|++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--------------p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~  333 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--------------EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREY  333 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--------------cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            4567777888889999999999998887654              32                46888899999999999


Q ss_pred             HHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHH-HHHH
Q 044256          261 LEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY-LLLS  339 (363)
Q Consensus       261 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~-~~~~  339 (363)
                      ++|+..++++.+.. +.+...|..+..+|...|++++|...|+++.+.. +-+...+..+..++.+.++++++.+ .+..
T Consensus       334 ~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~  411 (457)
T 1kt0_A          334 TKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYAN  411 (457)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999886 6678899999999999999999999999999874 4466788888888989998887764 4555


Q ss_pred             HHH
Q 044256          340 MEE  342 (363)
Q Consensus       340 m~~  342 (363)
                      |..
T Consensus       412 ~f~  414 (457)
T 1kt0_A          412 MFK  414 (457)
T ss_dssp             C--
T ss_pred             HHh
Confidence            543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.49  E-value=3.2e-06  Score=58.65  Aligned_cols=96  Identities=16%  Similarity=0.045  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc--
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV----TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN--   99 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--   99 (363)
                      .+..+...+...|++++|...|++..+..  |+.    ..+..+..++...|++++|...|+.+.+..       +.+  
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-------p~~~~   74 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-------PTHDK   74 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-------CCCcc
Confidence            45567778889999999999999998863  443    377788889999999999999999998854       333  


Q ss_pred             -hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256          100 -VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus       100 -~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                       ...+..+..++.+.|++++|...|+++.+..
T Consensus        75 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           75 AAGGLLKLGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence             5668888899999999999999999988753

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=5.9e-06  Score=59.64  Aligned_cols=139  Identities=15%  Similarity=0.010  Sum_probs=102.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-Cc----HhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhH
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM-PD----VFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMK  236 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (363)
                      ..++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++.....     ... 
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-----~~~-   82 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLA-----RQL-   82 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----HHT-
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-----HHh-
Confidence            346778888999999999999999887654110 11    2467778888999999999999998876432     111 


Q ss_pred             hcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cC-cchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          237 LCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----NC-ELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       237 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                       .........+..+...+...|++++|...+++....    +. .....++..+...+...|++++|.+.+++..+
T Consensus        83 -~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           83 -KDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence             000112456777888899999999999999988654    11 12245678888999999999999999998765

>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=98.42  E-value=9.2e-07  Score=76.49  Aligned_cols=121  Identities=10%  Similarity=-0.042  Sum_probs=95.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHH
Q 044256          203 LINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIF  282 (363)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  282 (363)
                      +...+.+.|++++|...+++.++..             +.+...+..+..++.+.|++++|++.+++..+.. +.+..++
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~-------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~   77 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELN-------------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGY   77 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC-------------CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            3345667899999999998887654             2357789999999999999999999999999875 6678899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH--HHccCChhHHHHHHH
Q 044256          283 NSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA--LGKEGQIKKENYLLL  338 (363)
Q Consensus       283 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  338 (363)
                      ..+..+|...|++++|.+.|+++.+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        78 ~~lg~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           78 YRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999998764 2344555555555  888899999999988

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.41  E-value=3.4e-06  Score=72.65  Aligned_cols=132  Identities=11%  Similarity=-0.034  Sum_probs=98.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHc-----C-CCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          171 GYCLVGKVNVAIALFDSMARK-----G-FMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      .+...|++++|+.++++..+.     | -.| ...+++.|...|...|++++|..++++.+.     +.........+..
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~-----i~~~~lG~~Hp~~  392 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVD-----GYMKLYHHNNAQL  392 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----HHHHHSCTTCHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-----HHHHHcCCCCHHH
Confidence            355789999999999887653     2 112 345789999999999999999999988753     3444443333444


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----c--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEIS-----N--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ..+++.|...|...|++++|+.++++....     |  .+....+...+-.++...+.+++|..++..+++
T Consensus       393 a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          393 GMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567899999999999999999999887643     2  233344556677777788888899888888865

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.41  E-value=1.8e-06  Score=71.15  Aligned_cols=142  Identities=13%  Similarity=-0.015  Sum_probs=73.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHH-HHHh---HhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKI-FNEM---KLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNC  275 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  275 (363)
                      +..+...+.+.|++++|...|++.+....... +...   ...........|..+..+|.+.|++++|+..+++..+.. 
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  260 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-  260 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            44455555666666666666666554321000 0000   000000011377888899999999999999999998875 


Q ss_pred             cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHH-HHccCChhHHHHHHHHHHHc
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHA-LGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +.+...|..+..+|...|++++|...|+++.+.. +-+...+..+... ....+..+++...|.+|...
T Consensus       261 p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          261 EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            6678899999999999999999999999998763 2345555555554 33456778888999998863

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.39  E-value=2.9e-06  Score=73.09  Aligned_cols=133  Identities=9%  Similarity=-0.085  Sum_probs=98.7

Q ss_pred             HHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-------cCcch
Q 044256          206 GYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS-------NCELF  278 (363)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~  278 (363)
                      .+...|++++|..++++.+..     .........+....+++.|..+|...|++++|+.++++....       ..+..
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~-----~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~  392 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEK-----QEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQL  392 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHH-----HTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHH-----HHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHH
Confidence            356789999999998887542     222222222234568999999999999999999999987643       22334


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhC-----CC-Ccc-HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCK-----NL-VAD-VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+++.|...|...|++++|..++++....     |. -|+ ..+.+.+-.++...+.+++|..+|.++++.
T Consensus       393 a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          393 GMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567899999999999999999999987632     31 122 334555667888899999999999999874

>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=98.39  E-value=6.8e-06  Score=68.51  Aligned_cols=134  Identities=10%  Similarity=-0.117  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHH----HHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 044256          199 SYSVLINGYCKNFNVEEAMNVSREMILNGFKKI----FNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISN  274 (363)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  274 (363)
                      .+..+...+.+.|++++|+..+++.++......    ...... .-+.+..+|..+..+|.+.|++++|+..++++.+..
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~-~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAK-LQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGG-GHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHH-HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            355566667777888888877777664210000    000000 001245678888889999999999999999998875


Q ss_pred             CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHH
Q 044256          275 CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       275 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  335 (363)
                       +.+...+..+..+|...|++++|...|+++.+.. +.+...+..+..++...++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             5577888899999999999999999999998864 3467777777777777777776654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.37  E-value=2.2e-06  Score=60.83  Aligned_cols=98  Identities=9%  Similarity=0.027  Sum_probs=81.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCH----------HHHHHHHHHHHhcCCCCCcccHHHHHHHHHh
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNI----------RDASQLVKKMATFGCRPNVTTCDTLITGLRR   71 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   71 (363)
                      +.+++|++.++...+.  .|.++..|+.+..++...+++          ++|+..|++.++.. +.+..+|..+..+|..
T Consensus        16 ~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            5789999999999997  787999999999999988775          59999999999874 3356789999999987


Q ss_pred             cC-----------ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHH
Q 044256           72 TG-----------NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGL  110 (363)
Q Consensus        72 ~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  110 (363)
                      .|           ++++|++.|++.++        +.|+...|...+...
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--------l~P~~~~y~~al~~~  134 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--------EQPDNTHYLKSLEMT  134 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--------HCTTCHHHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--------hCCCCHHHHHHHHHH
Confidence            64           89999999999999        567766665555443

>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=98.37  E-value=2.4e-05  Score=55.62  Aligned_cols=112  Identities=12%  Similarity=-0.059  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcc------h-----HHHHHHHHHHHHhcCChHHHHHHHHHhhhC-----
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCEL------F-----VEIFNSLIRGCCKFGIFEIASELFNKLSCK-----  308 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----  308 (363)
                      ..+......+...|++++|+..|++.++.....      +     ...|..+..++.+.|++++|+..+++.++.     
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            345666777889999999999999998764210      2     338999999999999999999999999876     


Q ss_pred             --CCCccHHHH----HHHHHHHHccCChhHHHHHHHHHHHc-----CCCCCHHHHHHHHH
Q 044256          309 --NLVADVVAY----NILIHALGKEGQIKKENYLLLSMEEN-----GCALDVDTFNTLMI  357 (363)
Q Consensus       309 --~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~~~~~~~ll~  357 (363)
                        + +-+...|    .....++...|++++|+..|++.++.     |+.+........+.
T Consensus        92 e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~  150 (159)
T 2hr2_A           92 ELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAI  150 (159)
T ss_dssp             CTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHH
T ss_pred             cCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence              4 3356788    88999999999999999999999763     66666665555544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.35  E-value=1.7e-05  Score=57.59  Aligned_cols=66  Identities=11%  Similarity=-0.078  Sum_probs=59.7

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      +...|..+..+|.+.|++++|+..+++++... +.+...|..+..+|...|++++|...|++.....
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            34678888999999999999999999999886 6778899999999999999999999999999873

>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=98.31  E-value=1.1e-05  Score=57.44  Aligned_cols=98  Identities=9%  Similarity=-0.052  Sum_probs=83.2

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--------c-----ccHHHHHHHHHhcCChhHHHHHHHHHHhc-
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPN--------V-----TTCDTLITGLRRTGNMNLTLKLHQEMVNG-   88 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-   88 (363)
                      ....+......+.+.|++++|+..|++.++.  .|+        .     ..|..+..++.+.|++++|+..++..++. 
T Consensus        10 ~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~   87 (159)
T 2hr2_A           10 GAYLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYF   87 (159)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            3456777888899999999999999999876  344        2     27889999999999999999999999985 


Q ss_pred             ------cCCCCCccCCchhhH----HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           89 ------MGDFGGIYKPNVFCY----GSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        89 ------~~~~~~~~~~~~~~~----~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                            .       +.+...|    .....++...|++++|+..|++..+.
T Consensus        88 n~~~e~~-------pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           88 NRRGELN-------QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHCCTT-------STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hccccCC-------CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence                  3       3456778    89999999999999999999998864

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.31  E-value=4.3e-06  Score=56.77  Aligned_cols=82  Identities=10%  Similarity=0.016  Sum_probs=72.3

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHH
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQE   84 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   84 (363)
                      +.|+..|+.+.+.  .|.++..|..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|...|+.
T Consensus         2 ~~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4688899999886  77789999999999999999999999999999874 34567888999999999999999999999


Q ss_pred             HHhcc
Q 044256           85 MVNGM   89 (363)
Q Consensus        85 ~~~~~   89 (363)
                      ..+..
T Consensus        79 al~~~   83 (115)
T 2kat_A           79 GLAAA   83 (115)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            98743

>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=98.29  E-value=1.6e-05  Score=66.34  Aligned_cols=107  Identities=7%  Similarity=-0.091  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----------------ccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEI----------------SNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .+..+...+.+.|++++|+..|++..+                .. +.+..+|..+..+|.+.|++++|...++++.+..
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ-PVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH-HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            567778889999999999999999886                22 4456788999999999999999999999999875


Q ss_pred             CCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 044256          310 LVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV-DTFNTLM  356 (363)
Q Consensus       310 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll  356 (363)
                       +.+...|..+..+|...|++++|+..|++.++.  .|+. ..+..+-
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~  348 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  348 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence             457889999999999999999999999999984  5543 3333333

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.25  E-value=3.1e-06  Score=60.02  Aligned_cols=103  Identities=9%  Similarity=-0.100  Sum_probs=82.2

Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCCh----------HHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF----------EIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+.+.+++|.+.++...+.. |.+...|..+..++...+++          ++|+..|++.++.+ +.+...|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            35567888999999888876 67788888888888877664          58999999988875 44678888888888


Q ss_pred             HccC-----------ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Q 044256          325 GKEG-----------QIKKENYLLLSMEENGCALDVDTFNTLMISFLQ  361 (363)
Q Consensus       325 ~~~g-----------~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  361 (363)
                      ...|           ++++|++.|++.++  +.|+...|...+....+
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHT
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHh
Confidence            8764           89999999999998  68888888877765543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.24  E-value=6.8e-06  Score=67.70  Aligned_cols=130  Identities=11%  Similarity=-0.049  Sum_probs=78.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHh------------------HHHHHHHHHHhcCChhHHHHHHHHHH
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVF------------------SYSVLINGYCKNFNVEEAMNVSREMI  224 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (363)
                      ..+..+...+.+.|+++.|...|++....  .|+..                  .|..+..+|.+.|++++|+..+++.+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34666777788889999999999887765  34432                  77888889999999999999999887


Q ss_pred             HhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHH-HHhcCChHHHHHHHH
Q 044256          225 LNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRG-CCKFGIFEIASELFN  303 (363)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~  303 (363)
                      ...             +.+...|..+..+|...|++++|...|+++.+.. +.+...+..+... ....+..+.+...|.
T Consensus       258 ~~~-------------p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~  323 (338)
T 2if4_A          258 TEE-------------EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYK  323 (338)
T ss_dssp             HHC-------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------------
T ss_pred             HhC-------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            654             2456788899999999999999999999998764 4455666666555 334566778888888


Q ss_pred             HhhhC
Q 044256          304 KLSCK  308 (363)
Q Consensus       304 ~~~~~  308 (363)
                      .+...
T Consensus       324 ~~l~~  328 (338)
T 2if4_A          324 GIFKG  328 (338)
T ss_dssp             -----
T ss_pred             HhhCC
Confidence            88765

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.20  E-value=5.8e-05  Score=66.60  Aligned_cols=172  Identities=8%  Similarity=-0.065  Sum_probs=129.1

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGN----------IRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-   73 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-   73 (363)
                      ++|++.++.+...  .|.+..+|+.--.++...|+          ++++++.++.+.+.. +-+..+|+.-.-++.+.+ 
T Consensus        46 eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           46 ESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            5788888888886  77678889888888877777          899999999998875 446778888888888888 


Q ss_pred             -ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHH
Q 044256           74 -NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR-LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLE  151 (363)
Q Consensus        74 -~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  151 (363)
                       +++++++.++.+.+..       +.|..+|+.-..++.+.| .++++++.++++.+..                     
T Consensus       123 ~~~~~el~~~~k~l~~d-------~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~---------------------  174 (567)
T 1dce_A          123 PNWARELELCARFLEAD-------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN---------------------  174 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT---------------------
T ss_pred             ccHHHHHHHHHHHHhhc-------cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC---------------------
Confidence             6699999999999875       667888888877777777 7778887777776542                     


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLV--------------GKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEE  215 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  215 (363)
                             +-+...|+.....+.+.              +.++++.+.++...... +-+...|..+-..+.+.++.++
T Consensus       175 -------p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          175 -------FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             -------CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             -------CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                   23455565555554442              45788888888887763 3366778877777777666443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.18  E-value=2.2e-06  Score=57.62  Aligned_cols=95  Identities=13%  Similarity=-0.009  Sum_probs=75.8

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCcc------HHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVAD------VVA  316 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~  316 (363)
                      +...+..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|.+.+++..... +.+      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHHH
Confidence            45567788888999999999999999998875 6678889999999999999999999999998863 223      556


Q ss_pred             HHHHHHHHHccCChhHHHHHHHH
Q 044256          317 YNILIHALGKEGQIKKENYLLLS  339 (363)
Q Consensus       317 ~~~li~~~~~~g~~~~a~~~~~~  339 (363)
                      +..+..++...|+++.|...+++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHH
Confidence            66677777777777776655443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.16  E-value=3.9e-05  Score=53.92  Aligned_cols=112  Identities=11%  Similarity=-0.128  Sum_probs=91.1

Q ss_pred             CChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHH
Q 044256          211 FNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCC  290 (363)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  290 (363)
                      +++++|+..|++..+.+             .|+.  .  +...|...+.+++|++.|++..+.+   ++..+..|...|.
T Consensus         9 ~d~~~A~~~~~~aa~~g-------------~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~   68 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-------------EMFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYE   68 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-------------CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-------------CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHH
Confidence            46778887777766543             2333  2  6667777788999999999999876   5667788888888


Q ss_pred             h----cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcCC
Q 044256          291 K----FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       291 ~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  345 (363)
                      .    .+++++|.+.|++..+.|   ++..+..+...|..    .+++++|.++|++..+.|.
T Consensus        69 ~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           69 NGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            7    899999999999999886   67788888888888    8999999999999999764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.14  E-value=0.00013  Score=51.21  Aligned_cols=111  Identities=10%  Similarity=-0.097  Sum_probs=90.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh----cCChhH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR----TGNMNL   77 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~   77 (363)
                      +++++|++.|+...+.| .| +  ..  +...|...+.+++|++.|++..+.|   +...+..|...|..    .+++++
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 KDLKKAIQYYVKACELN-EM-F--GC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CT-T--HH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CH-h--hh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            57899999999999875 22 3  33  7777778888999999999998864   66778888888887    789999


Q ss_pred             HHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 044256           78 TLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        78 a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~  130 (363)
                      |...|++..+.+         +...+..|...|..    .+++++|...|++..+.|
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            999999998754         46677888888888    788999999998887764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.12  E-value=0.00044  Score=61.05  Aligned_cols=171  Identities=8%  Similarity=-0.049  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcC--C
Q 044256          145 EANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK----------VNVAIALFDSMARKGFMPDVFSYSVLINGYCKNF--N  212 (363)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~  212 (363)
                      +|++.++.++... +-+..+|+.--.++...|+          ++++...++.+.+.. +-+..+|..-...+.+.+  +
T Consensus        47 eal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           47 SVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCC
T ss_pred             HHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccccc
Confidence            4455555555443 2334556655555555555          888888888888764 336677777777777888  6


Q ss_pred             hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC-CHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh
Q 044256          213 VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG-HVLEVMELFPTLEISNCELFVEIFNSLIRGCCK  291 (363)
Q Consensus       213 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  291 (363)
                      ++++++.++++.+.+             +-+..+|+.-..++...| ..+++++.+.++++.. +-|..+|+.....+.+
T Consensus       125 ~~~el~~~~k~l~~d-------------~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~  190 (567)
T 1dce_A          125 WARELELCARFLEAD-------------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             HHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhc-------------cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHh
Confidence            688888888887765             346677777777777777 7888888888888776 5567777776666555


Q ss_pred             c--------------CChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhH
Q 044256          292 F--------------GIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       292 ~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  332 (363)
                      .              +.++++.+.++++.... +-|...|..+-..+.+.++.++
T Consensus       191 l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          191 LHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             hcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence            3              45688888888887764 4467778777777766666443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.11  E-value=3.2e-05  Score=49.61  Aligned_cols=83  Identities=13%  Similarity=0.134  Sum_probs=68.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...|++..+..       +.+...
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------p~~~~~   79 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-------PNNAEA   79 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-------CCCHHH
Confidence            56788999999999999999999999998874 3456788889999999999999999999999854       445667


Q ss_pred             HHHHHHHHHhc
Q 044256          103 YGSLIDGLCKD  113 (363)
Q Consensus       103 ~~~ll~~~~~~  113 (363)
                      +..+..++.+.
T Consensus        80 ~~~l~~~~~~~   90 (91)
T 1na3_A           80 KQNLGNAKQKQ   90 (91)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            77766666543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.08  E-value=2.2e-05  Score=51.69  Aligned_cols=69  Identities=14%  Similarity=0.050  Sum_probs=60.0

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           20 RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      .|.++.+|..+..++...|++++|+..|++..+.. +.+...|..+..++...|++++|...|++..+..
T Consensus         3 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~   71 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVA   71 (100)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            46688999999999999999999999999999875 3456789999999999999999999999988743

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.05  E-value=3e-05  Score=52.46  Aligned_cols=78  Identities=13%  Similarity=-0.008  Sum_probs=40.7

Q ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          263 VMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       263 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      |+..|++..+.. +.+...+..+...|...|++++|...|++..... +.+...|..+..++...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444455444433 3344555555555555555555555555555442 23444555555555555555555555555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.04  E-value=1.8e-05  Score=52.97  Aligned_cols=89  Identities=11%  Similarity=-0.027  Sum_probs=69.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCc---
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPN---   99 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---   99 (363)
                      +...|..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|+..+++..+..        |+   
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--------p~~~~   73 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--------STAEH   73 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--------SSTTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------CCccH
Confidence            67789999999999999999999999998874 4467788899999999999999999999999853        43   


Q ss_pred             ----hhhHHHHHHHHHhcCCHHHHH
Q 044256          100 ----VFCYGSLIDGLCKDRLVDQTK  120 (363)
Q Consensus       100 ----~~~~~~ll~~~~~~~~~~~a~  120 (363)
                          ...+..+..++...|+.+.|.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~a~   98 (111)
T 2l6j_A           74 VAIRSKLQYRLELAQGAVGSVQIPV   98 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhhhH
Confidence                344455555555555444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.02  E-value=6.7e-05  Score=48.01  Aligned_cols=79  Identities=18%  Similarity=0.069  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      ..+..+...+...|++++|...+++..... +.+..++..+..++...|++++|...+++..... +.+...+..+..++
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            445555566666666666666666666553 3445566666666666666666666666666542 23444554444444


Q ss_pred             H
Q 044256          325 G  325 (363)
Q Consensus       325 ~  325 (363)
                      .
T Consensus        88 ~   88 (91)
T 1na3_A           88 Q   88 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.85  E-value=6.5e-05  Score=49.36  Aligned_cols=65  Identities=14%  Similarity=0.121  Sum_probs=49.6

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      +...+..+..++...|++++|+..|+++.+.. +.+...|..+..+|...|++++|.+.|++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45667777778888888888888888887765 556677788888888888888888888877643

>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=97.61  E-value=0.00029  Score=59.70  Aligned_cols=94  Identities=5%  Similarity=-0.155  Sum_probs=62.9

Q ss_pred             hcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----c--CcchHHH
Q 044256          209 KNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS-----N--CELFVEI  281 (363)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~  281 (363)
                      ..|++++|+.++++.+..     .........+....+++.+..+|...|++++|+.++++....     |  .+....+
T Consensus       310 ~~g~~~eA~~~~~~~L~i-----~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~  384 (433)
T 3qww_A          310 HYKSPSELLEICELSQEK-----MSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASM  384 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHH-----HTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHH-----hhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHH
Confidence            357788888887776532     222222222223467888888888888888888888887543     1  2233456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhh
Q 044256          282 FNSLIRGCCKFGIFEIASELFNKLSC  307 (363)
Q Consensus       282 ~~~li~~~~~~~~~~~a~~~~~~~~~  307 (363)
                      ++.|...|...|++++|..++++..+
T Consensus       385 l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          385 WLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            77888888888888888888877653

>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=97.60  E-value=0.00076  Score=57.21  Aligned_cols=99  Identities=7%  Similarity=-0.077  Sum_probs=75.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC---CCC----cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          169 LNGYCLVGKVNVAIALFDSMARKG---FMP----DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                      +..+.+.|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|+.++++++.     ++........+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~-----i~~~~lg~~Hp  368 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTME-----PYRIFFPGSHP  368 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-----HHHHHSCSSCH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHH-----hHHHHcCCCCh
Confidence            455667899999999999887541   122    345788899999999999999999998753     34444333333


Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      ....+++.|...|...|++++|+.++++..+
T Consensus       369 ~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          369 VRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3456788999999999999999999988764

>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=97.58  E-value=0.00035  Score=59.22  Aligned_cols=94  Identities=4%  Similarity=-0.163  Sum_probs=72.4

Q ss_pred             hcCCHHHHHHHHHHHHHc-----C-CCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHH
Q 044256          174 LVGKVNVAIALFDSMARK-----G-FMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFT  246 (363)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (363)
                      ..|++++|+.++++..+.     | -.| ...+++.|..+|...|++++|..++++.+.     ++........+....+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~-----i~~~~lG~~Hp~~a~~  384 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIK-----PYSKHYPVYSLNVASM  384 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----HHHHHSCSSCHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH-----HHHHHcCCCChHHHHH
Confidence            357899999999887653     2 112 246788999999999999999999998863     3444443333344567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044256          247 CNIFIDGLCKNGHVLEVMELFPTLEI  272 (363)
Q Consensus       247 ~~~ll~~~~~~~~~~~a~~~~~~~~~  272 (363)
                      ++.|...|...|++++|+.++++..+
T Consensus       385 l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          385 WLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            99999999999999999999998764

>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=97.56  E-value=0.0034  Score=51.26  Aligned_cols=74  Identities=11%  Similarity=0.010  Sum_probs=54.6

Q ss_pred             cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHH
Q 044256          276 ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFN  353 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  353 (363)
                      +.++.+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|...|++...  +.|...||.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            5566777777666666788888888888888774  6766666666777778888888888888777  467776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.50  E-value=0.0012  Score=46.23  Aligned_cols=92  Identities=9%  Similarity=-0.061  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC---ChHHHHHHHHHhhhCCCCc--cHHHHHHHHHHHHccCChhHHH
Q 044256          260 VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG---IFEIASELFNKLSCKNLVA--DVVAYNILIHALGKEGQIKKEN  334 (363)
Q Consensus       260 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~  334 (363)
                      ...+.+.|.+....+ +++..+...+..++++.+   +++++..+++...+.+ .|  +...+..+..++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            345555555555555 456667777777777776   5557777777777653 23  3455555666777777777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHH
Q 044256          335 YLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       335 ~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      +.++.+++  +.|+..--..|
T Consensus        92 ~y~~~lL~--ieP~n~QA~~L  110 (152)
T 1pc2_A           92 KYVRGLLQ--TEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHHHHh--cCCCCHHHHHH
Confidence            77777777  56654433333

>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=97.47  E-value=0.00091  Score=56.71  Aligned_cols=105  Identities=9%  Similarity=-0.011  Sum_probs=77.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCC-CCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChH
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGD-FGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLV  144 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  144 (363)
                      +..+.+.|++++|+.++++..+.... ++...+....+++.+..+|...|++++|+.++++.+..               
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i---------------  358 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEP---------------  358 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHh---------------
Confidence            44566788999999999999875422 22223334678999999999999999999999887642               


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256          145 EANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMAR  190 (363)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (363)
                           ++.......+....+++.|...|...|++++|+.++++..+
T Consensus       359 -----~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          359 -----YRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             -----HHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----HHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence                 33333232233357788899999999999999999987654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00028  Score=45.98  Aligned_cols=59  Identities=17%  Similarity=0.160  Sum_probs=40.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           30 LIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        30 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      ....+.+.|++++|+..|++..+.. +.+.. .|..+..++...|++++|...|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3455667777777777777777653 23445 66667777777777777777777777643

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00053  Score=44.62  Aligned_cols=59  Identities=12%  Similarity=0.137  Sum_probs=49.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCcchHH-HHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEISNCELFVE-IFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      ....+...|++++|...++++.+.. +.+.. .+..+..+|...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3456778899999999999988775 55667 88888899999999999999999988764

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.37  E-value=0.0024  Score=52.18  Aligned_cols=138  Identities=10%  Similarity=-0.055  Sum_probs=86.2

Q ss_pred             CCCchhhHHHHHHHHHh--c---CCHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHh----cCC----hhHHHHHHHHH
Q 044256           20 RPLNDVTFNSLIKGFCM--E---GNIRDASQLVKKMATFGCRPN-VTTCDTLITGLRR----TGN----MNLTLKLHQEM   85 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~--~---~~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~----~~~----~~~a~~~~~~~   85 (363)
                      .|.+..+|...+++...  .   .+..+|+.+|++.++.  .|+ ...|..+..++..    ...    .......++..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            45588888888876543  2   3457899999999887  555 3344443333321    111    11111222222


Q ss_pred             HhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch------hhhccCChHHHHHHHHHHHHcCCC
Q 044256           86 VNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT------LLCKKTKLVEANRLLELMMQRGLN  159 (363)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~~~  159 (363)
                      .....     -+.+..+|..+...+...|+++.|...+++....+.....      .+.-.|++++|.+.+++....+  
T Consensus       268 ~a~~~-----~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--  340 (372)
T 3ly7_A          268 VTLPE-----LNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--  340 (372)
T ss_dssp             HTCGG-----GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--
T ss_pred             Hhccc-----CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--
Confidence            22110     3566778888877777789999999999999887632211      4557899999999999888874  


Q ss_pred             CchhhHH
Q 044256          160 PVIFTYT  166 (363)
Q Consensus       160 ~~~~~~~  166 (363)
                      |...+|.
T Consensus       341 P~~~t~~  347 (372)
T 3ly7_A          341 PGANTLY  347 (372)
T ss_dssp             CSHHHHH
T ss_pred             CCcChHH
Confidence            5555553

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.28  E-value=0.0024  Score=40.96  Aligned_cols=66  Identities=11%  Similarity=-0.139  Sum_probs=38.3

Q ss_pred             CChHHHHHHHHHHHhcCC---HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          242 PETFTCNIFIDGLCKNGH---VLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      .+...+..+..++...++   .++|..++++..+.. +-++.....+...+.+.|++++|...|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555555543333   466666666666554 445556666666666666666666666666654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.24  E-value=0.0035  Score=40.18  Aligned_cols=69  Identities=4%  Similarity=0.004  Sum_probs=56.8

Q ss_pred             CCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           20 RPLNDVTFNSLIKGFCMEGN---IRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      .|.++..+..+..++...++   .++|..++++.++.. +-+......+...+.+.|++++|+..|+.+.+..
T Consensus         2 ~p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            2 NAVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            35588889999988865555   789999999999874 4456677888889999999999999999999854

>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=96.93  E-value=0.0092  Score=46.76  Aligned_cols=104  Identities=11%  Similarity=0.041  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHhcCCCCC---cccHHHHHHHHHh-----cCChhHHHHHHHHHHhccCCCCCccCC--chhhHHHHHHH
Q 044256           40 IRDASQLVKKMATFGCRPN---VTTCDTLITGLRR-----TGNMNLTLKLHQEMVNGMGDFGGIYKP--NVFCYGSLIDG  109 (363)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~~~~~ll~~  109 (363)
                      ...|...+++.++.  .|+   -..|..+...|..     .|+.++|.+.|++.++.        .|  +..++......
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--------nP~~~id~~v~YA~~  248 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--------CSAHDPDHHITYADA  248 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--------CCTTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--------CCCCCchHHHHHHHH
Confidence            56777888888876  566   4578889999988     49999999999999994        45  37888888888


Q ss_pred             HHhc-CCHHHHHHHHHHHHHcCCC--cchhhhccCChHHHHHHHHHH
Q 044256          110 LCKD-RLVDQTKDLFMEMKDKGIN--ANTLLCKKTKLVEANRLLELM  153 (363)
Q Consensus       110 ~~~~-~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~a~~~~~~~  153 (363)
                      +++. |+.+.+.+.+++.....+.  |+..+...+.-++|..+++++
T Consensus       249 l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q~eA~~LL~~~  295 (301)
T 3u64_A          249 LCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQKRARWLKAHV  295 (301)
T ss_dssp             TTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHHHHHHHHHHTH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHHHHHHHHHHHh
Confidence            8885 9999999999999988766  555555555555665555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.88  E-value=0.046  Score=50.65  Aligned_cols=47  Identities=13%  Similarity=0.160  Sum_probs=27.1

Q ss_pred             HHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044256           69 LRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMK  127 (363)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  127 (363)
                      ....|+++.|.++.+.            ..+...|..+...+.+.++++.|.+.|.++.
T Consensus       662 ~l~~~~~~~A~~~~~~------------~~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTD------------ESAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHTCHHHHHHHHTT------------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             hhhcCCHHHHHHHHHh------------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            3455666666555321            2334566666666666666666666666543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.87  E-value=0.022  Score=52.83  Aligned_cols=76  Identities=16%  Similarity=0.086  Sum_probs=42.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 044256          104 GSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIA  183 (363)
Q Consensus       104 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (363)
                      ..++..+.+.|.++.|+++.+.-...    -......|+++.|.++.+.+      .+...|..+...+.+.++++.|++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~~~----f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~  702 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQDQK----FELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIE  702 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHHHH----HHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCCcchh----eehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHH
Confidence            67777778888888877665322110    01233455555555543221      234556666666666666666666


Q ss_pred             HHHHHH
Q 044256          184 LFDSMA  189 (363)
Q Consensus       184 ~~~~~~  189 (363)
                      .|..+.
T Consensus       703 ~y~~~~  708 (814)
T 3mkq_A          703 AFTNAH  708 (814)
T ss_dssp             HHHHHT
T ss_pred             HHHHcc
Confidence            665543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.85  E-value=0.013  Score=38.46  Aligned_cols=66  Identities=12%  Similarity=-0.067  Sum_probs=49.4

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc------CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISN------CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      +...+..+...+...|++..|...|+...+..      -.+...++..|..++.+.|+++.|...++++...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44556677788888888888888888876541      1345677788888888888888888888888765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.81  E-value=0.019  Score=40.31  Aligned_cols=83  Identities=16%  Similarity=0.055  Sum_probs=66.8

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCC--CcccHHHHHHHHHhcCChhH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEG---NIRDASQLVKKMATFGCRP--NVTTCDTLITGLRRTGNMNL   77 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~l~~~~~~~~~~~~   77 (363)
                      ....+.+.|....+.+. + +..+...+..++++.+   ++++++.+|+...+.. .|  +...+-.|.-++.+.+++++
T Consensus        13 ~l~~~~~~y~~e~~~~~-~-~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-V-SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-C-CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHccCC-C-cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            35567777777766543 4 8899999999999988   6779999999998874 34  35566667788899999999


Q ss_pred             HHHHHHHHHhc
Q 044256           78 TLKLHQEMVNG   88 (363)
Q Consensus        78 a~~~~~~~~~~   88 (363)
                      |.+.++.+.+.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999999994

>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=96.80  E-value=0.023  Score=39.36  Aligned_cols=107  Identities=11%  Similarity=-0.015  Sum_probs=78.8

Q ss_pred             CCCchhhHHHHHHHHHhcCCH------HHHHHHHHHHHhcCCCCCcc-cHHHHHHHH------HhcCChhHHHHHHHHHH
Q 044256           20 RPLNDVTFNSLIKGFCMEGNI------RDASQLVKKMATFGCRPNVT-TCDTLITGL------RRTGNMNLTLKLHQEMV   86 (363)
Q Consensus        20 ~p~~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~------~~~~~~~~a~~~~~~~~   86 (363)
                      .|.|.++|-..+...-+.|++      ++..++|++.... ++|+.. .|...+..+      ...++.++|.++|+.++
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            577999999999999999999      8999999998875 466532 222222221      23478999999999998


Q ss_pred             hccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc
Q 044256           87 NGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINAN  134 (363)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  134 (363)
                      +...      .- ..+|......-.+.|++..|.+++......+..|.
T Consensus        88 ~~hK------kF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           88 ANCK------KF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             HHCT------TB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             HHhH------HH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            7531      22 66777777777889999999999998887665544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.76  E-value=0.047  Score=39.33  Aligned_cols=96  Identities=19%  Similarity=0.212  Sum_probs=64.9

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKL   81 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   81 (363)
                      |+++.|.++.+.+      . +...|..|.+.....|+++-|.+.|.+...         +..+.-.|.-.|+.+...++
T Consensus        19 g~l~~A~e~a~~l------~-~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           19 GNLDAALDEAKKL------N-DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             TCHHHHHHHHHHH------C-CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHHh------C-CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            5667777765544      1 667788888888888888888888877552         44555566667777666666


Q ss_pred             HHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 044256           82 HQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFME  125 (363)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  125 (363)
                      -+.....+            -++....++...|+++++.++|.+
T Consensus        83 a~iA~~~g------------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           83 QNIAQTRE------------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHTT------------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHCc------------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555443            355556666777888888877754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.74  E-value=0.014  Score=38.31  Aligned_cols=66  Identities=14%  Similarity=0.083  Sum_probs=55.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFG------CRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNG   88 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   88 (363)
                      ++..+..+...+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|...++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            67778899999999999999999999987641      1234557888999999999999999999999984

>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=96.74  E-value=0.031  Score=43.89  Aligned_cols=85  Identities=14%  Similarity=0.087  Sum_probs=70.7

Q ss_pred             hhhhHHHHHHHHHHcCCCCC--chhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhc-CC
Q 044256            3 KVLGALMAFGSFIRRCYRPL--NDVTFNSLIKGFCME-----GNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRT-GN   74 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-~~   74 (363)
                      ....|..+++++++.  .|.  +...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......+++. |+
T Consensus       178 ~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          178 TVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             hHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            467888999999987  773  467899999999994     99999999999999974222477788888888884 99


Q ss_pred             hhHHHHHHHHHHhcc
Q 044256           75 MNLTLKLHQEMVNGM   89 (363)
Q Consensus        75 ~~~a~~~~~~~~~~~   89 (363)
                      .+++.+.+++.....
T Consensus       256 ~~~a~~~L~kAL~a~  270 (301)
T 3u64_A          256 RAGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHcCC
Confidence            999999999999865

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.73  E-value=0.033  Score=37.52  Aligned_cols=88  Identities=8%  Similarity=-0.082  Sum_probs=57.2

Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHH---HHHHHHHhhhCCCCc--cHHHHHHHHHHHHccCChhH
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEI---ASELFNKLSCKNLVA--DVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~  332 (363)
                      ..+..+.+-|......+ .++..+-..+..++++..+...   ++.+++.+...+ .|  .......+.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            34455555565555545 4666676777777777776555   777777777654 23  33344455567788888888


Q ss_pred             HHHHHHHHHHcCCCCCH
Q 044256          333 ENYLLLSMEENGCALDV  349 (363)
Q Consensus       333 a~~~~~~m~~~g~~p~~  349 (363)
                      |.+.++.+++  +.|+.
T Consensus        93 A~~~~~~lL~--~eP~n  107 (126)
T 1nzn_A           93 ALKYVRGLLQ--TEPQN  107 (126)
T ss_dssp             HHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHH--hCCCC
Confidence            8888888887  46654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.51  E-value=0.092  Score=37.85  Aligned_cols=110  Identities=12%  Similarity=0.037  Sum_probs=71.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCC
Q 044256          161 VIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNV  240 (363)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  240 (363)
                      +...|..|.......|+++-|++.|....+         +..+.-.|...|+.+....+-+.....+             
T Consensus        33 ~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~iA~~~g-------------   90 (177)
T 3mkq_B           33 DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQNIAQTRE-------------   90 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHHHHHHTT-------------
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHHHHHHCc-------------
Confidence            456899999999999999999999987654         4445555666777766654433333222             


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          241 VPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       241 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                           -++.....+...|+++++.++|.+.-+   .|...      ......|-.+.|.++.+++-
T Consensus        91 -----~~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA~------~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           91 -----DFGSMLLNTFYNNSTKERSSIFAEGGS---LPLAY------AVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             -----CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHHHH------HHHHHTTCHHHHHHHHHHTT
T ss_pred             -----cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHHHH------HHHHHcCcHHHHHHHHHHhC
Confidence                 245555666778999999999865432   22111      11123566777888877653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.50  E-value=9.6e-06  Score=67.60  Aligned_cols=257  Identities=12%  Similarity=0.108  Sum_probs=161.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      .+..|..|..+....+++.+|++-|=+      .-|...|..++.+..+.|.+++-...+...++.        ..++.+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--------~ke~~I  118 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--------ARESYV  118 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--------CCSTTT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--------hccccc
Confidence            567899999999999988888876622      236667889999999999999999988877663        445566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL  174 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (363)
                      =+.|+-+|++.++..+..+++.       .|+.        -+...|.++.|.-+|.         +..-|.-|...+.+
T Consensus       119 DteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys---------~isN~akLAstLV~  182 (624)
T 3lvg_A          119 ETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYN---------NVSNFGRLASTLVH  182 (624)
T ss_dssp             THHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGG---------GSCCCTTTSSSSSS
T ss_pred             HHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHH---------hCccHHHHHHHHHH
Confidence            7789999999988765333221       1111        1222222222222221         11122233333444


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHH
Q 044256          175 VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL  254 (363)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  254 (363)
                      .|++..|.+.-   ++   ..++.||..+-.+|...+++.-|.-.--.++                 ........++..|
T Consensus       183 L~~yq~AVdaA---rK---Ans~ktWKeV~~ACvd~~EfrLAqicGLniI-----------------vhadeL~elv~~Y  239 (624)
T 3lvg_A          183 LGEYQAAVDGA---RK---ANSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----------------VHADELEELINYY  239 (624)
T ss_dssp             CSGGGSSTTTT---TT---CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH-----------------CCSSCCSGGGSSS
T ss_pred             HHHHHHHHHHH---Hh---cCChhHHHHHHHHHhCchHHHHHHHhcchhc-----------------ccHHHHHHHHHHH
Confidence            44444443321   11   2477899999999999999888753322221                 2222344567778


Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC-CCCc------cHHHHHHHHHHHHcc
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK-NLVA------DVVAYNILIHALGKE  327 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~li~~~~~~  327 (363)
                      -..|.+++.+.+++...... .....+|+-|.-.|++- ++++..+.++..-++ +++.      ....|.-++-.|.+-
T Consensus       240 E~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~y  317 (624)
T 3lvg_A          240 QDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKY  317 (624)
T ss_dssp             STTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcc
Confidence            88999999999999887544 56788899998888876 566666655543322 2221      233466666666666


Q ss_pred             CChhHHH
Q 044256          328 GQIKKEN  334 (363)
Q Consensus       328 g~~~~a~  334 (363)
                      .++|.|.
T Consensus       318 dE~DnA~  324 (624)
T 3lvg_A          318 EEYDNAI  324 (624)
T ss_dssp             TCHHHHH
T ss_pred             hhHHHHH
Confidence            6666554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.49  E-value=0.1  Score=35.42  Aligned_cols=65  Identities=18%  Similarity=0.085  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  310 (363)
                      ..+...++.....|..++-.+++..+.... +|++...-.+..+|.+.|+..+|.+++.++-+.|+
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            344455555666666666666666644332 55566666666666666666666666666666653

>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=96.43  E-value=0.043  Score=38.04  Aligned_cols=113  Identities=12%  Similarity=-0.005  Sum_probs=79.4

Q ss_pred             CChHHHHHHHHHHHhcCCH------HHHHHHHHHHHhccCcchHH-HHHHHHH------HHHhcCChHHHHHHHHHhhhC
Q 044256          242 PETFTCNIFIDGLCKNGHV------LEVMELFPTLEISNCELFVE-IFNSLIR------GCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~li~------~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      .|..+|-..+...-+.|++      ++..++|++.... +||+.. .|...|.      .+...++.++|.++|+.+++.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4566777777777777888      8888999988764 466531 1111111      113448999999999999765


Q ss_pred             CCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          309 NLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       309 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      +-.. ...|......-.+.|+.+.|.+++.+.+..+-+| ...+...|+
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~  136 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALR  136 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHH
Confidence            3333 8888888888889999999999999999876444 444444443

>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=95.78  E-value=0.19  Score=31.98  Aligned_cols=50  Identities=12%  Similarity=0.036  Sum_probs=27.8

Q ss_pred             ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          294 IFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       294 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      +.-+..+-++.+....+.|++....+.+++|.+.+++..|.++|+-...+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555555555555543

>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=95.34  E-value=0.11  Score=43.44  Aligned_cols=70  Identities=9%  Similarity=0.036  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhh-----CCCCccHHH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSC-----KNLVADVVA  316 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  316 (363)
                      +...++..+...|++.++...+..+.... |.+...+..++.++.+.|+..+|.+.|+...+     .|+.|...+
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            44455666667777777777777766554 56666777777777777777777777776543     366665554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.21  E-value=0.29  Score=33.01  Aligned_cols=85  Identities=11%  Similarity=-0.046  Sum_probs=51.5

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhH---HHHHHHHHHhccCCCCCccCC--chhhHHHHHHHHH
Q 044256           37 EGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNL---TLKLHQEMVNGMGDFGGIYKP--NVFCYGSLIDGLC  111 (363)
Q Consensus        37 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~--~~~~~~~ll~~~~  111 (363)
                      ......+.+-|......| .|+..+-..+..+++++.+...   ++.+++.+...+       .|  .....-.|.-++.
T Consensus        14 ~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-------~p~~~Rd~lY~LAvg~y   85 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-------SKEEQRDYVFYLAVGNY   85 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-------CcchHHHHHHHHHHHHH
Confidence            334445555555555544 3566655566666666665554   667777766543       22  3344455666777


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 044256          112 KDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       112 ~~~~~~~a~~~~~~~~~~  129 (363)
                      +.|++++|.+.++.+++.
T Consensus        86 klg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           86 RLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHh
Confidence            777777777777777764

>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=94.95  E-value=0.44  Score=32.24  Aligned_cols=69  Identities=10%  Similarity=0.033  Sum_probs=50.7

Q ss_pred             HHhcC-ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044256          289 CCKFG-IFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMIS  358 (363)
Q Consensus       289 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  358 (363)
                      +.+.. |.-+..+-++.+...++.|++......+++|.+.+|+..|.++|+-...+ +.+....|..+++-
T Consensus        62 F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           62 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            33444 55567777778888888888888888888888888888888888888765 34445557666654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.77  E-value=0.59  Score=42.45  Aligned_cols=134  Identities=15%  Similarity=0.032  Sum_probs=82.2

Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCcHhHH--HHHHHHHHhcC-ChhHHHHHHHHHHHhhHHHHHHHhHhcCCC
Q 044256          166 TPLLNGYCLVGK-VNVAIALFDSMARKGFMPDVFSY--SVLINGYCKNF-NVEEAMNVSREMILNGFKKIFNEMKLCNVV  241 (363)
Q Consensus       166 ~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  241 (363)
                      ..++..+...++ ++.|..+|+.+...  .|....+  ..++..+...+ +--+|.+++.+.++.    +..........
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~----~~~~~~~l~~~  325 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIETKELDMITILNETLDP----LLSLLNDLPPR  325 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH----HHHHHHTCSSC
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH----hhhhhhhhccc
Confidence            344454545555 68899999999887  3433332  23333333332 233455555554432    11111111101


Q ss_pred             C---------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 044256          242 P---------ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLS  306 (363)
Q Consensus       242 ~---------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  306 (363)
                      .         +......=.+.|...|+++-|+++-++..... |.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       326 ~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          326 DADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            0         01112222345667899999999999998774 6678899999999999999999999998874

>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=94.74  E-value=0.17  Score=42.21  Aligned_cols=73  Identities=8%  Similarity=-0.079  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHHHHH
Q 044256          281 IFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE-----NGCALDVDTFNT  354 (363)
Q Consensus       281 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  354 (363)
                      +...++..+...|++.+|...+..+.... +.+...|..++.++.+.|+..+|++.|+++.+     .|+.|+..+-..
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            34556777888899999998888887764 56888999999999999999999999888754     389998776443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.57  E-value=3  Score=38.95  Aligned_cols=218  Identities=11%  Similarity=-0.019  Sum_probs=120.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC--C-----cch--------hhhccCC-hHHHHHHHHHHHHcCCCCchhhHH--
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGI--N-----ANT--------LLCKKTK-LVEANRLLELMMQRGLNPVIFTYT--  166 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~--~-----~~~--------~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--  166 (363)
                      .+.-+....|..+++..++.......-  .     +..        .+.-.|. -+++...+..++...- +......  
T Consensus       416 llaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~Aal  494 (963)
T 4ady_A          416 LYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEAAAL  494 (963)
T ss_dssp             HHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHH
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHH
Confidence            344445566666677777776654321  0     100        1222222 2455566665554321 1111112  


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHH--HHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          167 PLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLI--NGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      +|...+...|+.+....++..+.+..   +......+.  -++.-.|+.+.+..+++.+....             .|. 
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-------------dp~-  557 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-------------ESL-  557 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-------------CHH-
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-------------CHH-
Confidence            23344556788888888888776542   222333333  34446788888876666554321             122 


Q ss_pred             HHHH---HHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          245 FTCN---IFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       245 ~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .-|.   ++.-+|+..|+.....+++..+.... ..+..-...+.-++...|+.+.+.++++.+...+ .|....-..+.
T Consensus       558 vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalA  635 (963)
T 4ady_A          558 LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFA  635 (963)
T ss_dssp             HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHH
Confidence            2232   33456778889877777998887653 3444444445555666788777888887776654 45555444444


Q ss_pred             HHHHccCCh-hHHHHHHHHHHH
Q 044256          322 HALGKEGQI-KKENYLLLSMEE  342 (363)
Q Consensus       322 ~~~~~~g~~-~~a~~~~~~m~~  342 (363)
                      -+....|.. .++..++..+..
T Consensus       636 LGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          636 LGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHhccCCCcHHHHHHHHHHcc
Confidence            455555554 467777777764

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.45  E-value=0.96  Score=41.14  Aligned_cols=126  Identities=13%  Similarity=0.041  Sum_probs=80.3

Q ss_pred             HHHHHHHHhcCC-hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHH--HHHHHHHhcC-CHHHHHHHHHHHHhc---
Q 044256          201 SVLINGYCKNFN-VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCN--IFIDGLCKNG-HVLEVMELFPTLEIS---  273 (363)
Q Consensus       201 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~-~~~~a~~~~~~~~~~---  273 (363)
                      ..++..+...++ .+.|..+++++...+              |....+-  .++..+...+ +--+|.+++.+..+.   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--------------p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~  317 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--------------PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLS  317 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--------------GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--------------CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhh
Confidence            445555555666 577988888877654              5433322  2333333333 233555555554421   


Q ss_pred             ---cCcch-----------HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHH
Q 044256          274 ---NCELF-----------VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLS  339 (363)
Q Consensus       274 ---~~~~~-----------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  339 (363)
                         ..++.           ......-...|...|+++-|+++-++....- +-+-.+|..|..+|...|+++.|+-.++.
T Consensus       318 ~~~~l~~~~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNS  396 (754)
T 4gns_B          318 LLNDLPPRDADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINS  396 (754)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhhcccccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhc
Confidence               11111           1122222344667899999999999998763 56799999999999999999999999998


Q ss_pred             HH
Q 044256          340 ME  341 (363)
Q Consensus       340 m~  341 (363)
                      +.
T Consensus       397 cP  398 (754)
T 4gns_B          397 MP  398 (754)
T ss_dssp             SC
T ss_pred             CC
Confidence            74

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.16  E-value=0.00097  Score=55.99  Aligned_cols=240  Identities=12%  Similarity=0.009  Sum_probs=160.0

Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           19 YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ++..|+..|..+|.+..+.|.+++-+..+...++..-  +...=+.|+-+|++.++..+-.+++             ..|
T Consensus        78 IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk~~rL~elEefl-------------~~~  142 (624)
T 3lvg_A           78 IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI-------------NGP  142 (624)
T ss_dssp             CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHTSCSSSTTTSTT-------------SCC
T ss_pred             HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHhhCcHHHHHHHH-------------cCC
Confidence            4445788999999999999999999998877665533  3444568999999999877654432             367


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 044256           99 NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKV  178 (363)
Q Consensus        99 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (363)
                      |..-...+..-|...|.++.|.-+|..+..- -.....+...|++..|.+.-.+      ..++.||..+-.+|...+.+
T Consensus       143 N~A~iq~VGDrcf~e~lYeAAKilys~isN~-akLAstLV~L~~yq~AVdaArK------Ans~ktWKeV~~ACvd~~Ef  215 (624)
T 3lvg_A          143 NNAHIQQVGDRCYDEKMYDAAKLLYNNVSNF-GRLASTLVHLGEYQAAVDGARK------ANSTRTWKEVCFACVDGKEF  215 (624)
T ss_dssp             SSSCTHHHHHHHHHSCCSTTSSTTGGGSCCC-TTTSSSSSSCSGGGSSTTTTTT------CCSSCSHHHHTHHHHHSCTT
T ss_pred             CcccHHHHHHHHHHccCHHHHHHHHHhCccH-HHHHHHHHHHHHHHHHHHHHHh------cCChhHHHHHHHHHhCchHH
Confidence            7878888899999999999888777654321 2222356677777766543221      34678999999999999998


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcC
Q 044256          179 NVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNG  258 (363)
Q Consensus       179 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  258 (363)
                      ..|.-.--.+.-+.     .-...++..|-+.|.+++-+.+++..+...             +.....|+-|.-.|++- 
T Consensus       216 rLAqicGLniIvha-----deL~elv~~YE~~G~f~ELIsLlEaglglE-------------rAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          216 RLAQMCGLHIVVHA-----DELEELINYYQDRGYFEELITMLEAALGLE-------------RAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             TTTTHHHHHHHCCS-----SCCSGGGSSSSTTCCCTTSTTTHHHHTTST-------------TCCHHHHHHHHHHHHSS-
T ss_pred             HHHHHhcchhcccH-----HHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-------------chhHHHHHHHHHHHHhc-
Confidence            88776655544331     123345666888899998887777654221             34566777777777665 


Q ss_pred             CHHHHHHHHHHHHhc-cCcc------hHHHHHHHHHHHHhcCChHHHH
Q 044256          259 HVLEVMELFPTLEIS-NCEL------FVEIFNSLIRGCCKFGIFEIAS  299 (363)
Q Consensus       259 ~~~~a~~~~~~~~~~-~~~~------~~~~~~~li~~~~~~~~~~~a~  299 (363)
                      ++++..+.++..-.+ +++.      ....|.-++-.|.+-.+++.|.
T Consensus       277 ~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          277 KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            456665555543221 2211      2334666666666666666554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.71  E-value=1.1  Score=30.62  Aligned_cols=68  Identities=15%  Similarity=0.089  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 044256          278 FVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       278 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      +...+...+..+...|.-++-.+++..+... .+|++.....+..||.+.|+..+|.+++.+.-+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            3455677788889999999999999996553 3788999999999999999999999999999999875

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.50  E-value=0.89  Score=29.02  Aligned_cols=63  Identities=11%  Similarity=0.229  Sum_probs=50.2

Q ss_pred             CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           39 NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      +.-+..+-++.+....+.|++....+.+++|.+.+++..|.++|+.++..-       .+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-------~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-------GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-------TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-------cCchhhHHHHHH
Confidence            455677778888888889999999999999999999999999999888753       344556776664

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.89  E-value=1.5  Score=29.79  Aligned_cols=73  Identities=8%  Similarity=-0.059  Sum_probs=44.0

Q ss_pred             cchHHHHHHHHHHHHhcCC---hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHH
Q 044256          276 ELFVEIFNSLIRGCCKFGI---FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVD  350 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  350 (363)
                      .|+..+--.+..++++..+   ..+++.+++.+.+.+..-....+-.+.-++.+.|++++|.+..+.+++  +.|+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N~  112 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  112 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTCH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCCH
Confidence            4555555555666665554   345666777666554112344455555677777777777777777776  456544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.42  E-value=4.6  Score=34.36  Aligned_cols=123  Identities=8%  Similarity=0.097  Sum_probs=69.1

Q ss_pred             hhhhhHHHHHHHHHHcC----CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCCCcccHHHHHHHH----Hhc
Q 044256            2 SKVLGALMAFGSFIRRC----YRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATF-GCRPNVTTCDTLITGL----RRT   72 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~----~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~l~~~~----~~~   72 (363)
                      |+++.|++.+-.+.+..    -.+.+......++..|...|+++...+.+..+.+. |..+.  ....+++.+    ...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcC
Confidence            57788888776665421    22335677888999999999999998887766543 32222  222333322    223


Q ss_pred             CChhHHHHHHHHHHhccCC-CCCccCC---chhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           73 GNMNLTLKLHQEMVNGMGD-FGGIYKP---NVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        73 ~~~~~a~~~~~~~~~~~~~-~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      ...+....  ....+.-.. .++.+-.   .......|...+...|++.+|.+++.++..
T Consensus       108 ~~~d~~~~--~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~  165 (445)
T 4b4t_P          108 KSLDLNTR--ISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQV  165 (445)
T ss_dssp             CTTHHHHH--HHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CchhHHHH--HHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            33222111  111111100 0000111   123345677888889999999999988864

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.23  E-value=7  Score=37.96  Aligned_cols=143  Identities=10%  Similarity=-0.069  Sum_probs=86.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCCh
Q 044256           64 TLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKL  143 (363)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  143 (363)
                      .++..+...+..+.+.++..-           .+.+...--.+..++...|++++|.+.|++... ++......  ....
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~-----------~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l--~~~~  882 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGW-----------LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQ--FAVL  882 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHH-----------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCS--CSSH
T ss_pred             HHHHHHHHhhhHHHHHHHhhh-----------ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchh--hhhh
Confidence            455556666777666654322           234444445667888999999999999987532 12111100  0001


Q ss_pred             HHHHHHHHHHHHcCC--CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc----HhHHHHHHHHHHhcCChhHHH
Q 044256          144 VEANRLLELMMQRGL--NPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPD----VFSYSVLINGYCKNFNVEEAM  217 (363)
Q Consensus       144 ~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~  217 (363)
                      .    -+..+.....  ..-..-|..++..+.+.+.++.+.++-....+...+.+    ...|..+.+++...|++++|.
T Consensus       883 ~----~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay  958 (1139)
T 4fhn_B          883 R----EFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAH  958 (1139)
T ss_dssp             H----HHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGG
T ss_pred             c----ccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHH
Confidence            1    1112222111  11223577788889999999999988776665422112    125788899999999999998


Q ss_pred             HHHHHHH
Q 044256          218 NVSREMI  224 (363)
Q Consensus       218 ~~~~~~~  224 (363)
                      ..+-.+.
T Consensus       959 ~aL~~~p  965 (1139)
T 4fhn_B          959 VALMVLS  965 (1139)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhCC
Confidence            8776554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.52  E-value=5.9  Score=33.69  Aligned_cols=260  Identities=10%  Similarity=0.003  Sum_probs=138.9

Q ss_pred             CChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCcch----------hhhccC
Q 044256           73 GNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG-INANT----------LLCKKT  141 (363)
Q Consensus        73 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----------~~~~~~  141 (363)
                      ++++.|++.+-.+.+.... ......+......++..|...|+++...+.+.-+.+.. ..+..          .+....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~-~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQ-ASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSS-SCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhh-ccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            5667777766555543211 11134445667778888888888888877776655432 11111          001111


Q ss_pred             ChHH--HHHHHHHHHH--cC-CCC---chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCc---HhHHHHHHHHHH
Q 044256          142 KLVE--ANRLLELMMQ--RG-LNP---VIFTYTPLLNGYCLVGKVNVAIALFDSMARK--GFMPD---VFSYSVLINGYC  208 (363)
Q Consensus       142 ~~~~--a~~~~~~~~~--~~-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~  208 (363)
                      ..+.  -..+.+.+..  .| +-.   .......|...+...|++.+|..++..+...  |..+.   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            1111  1111111100  01 000   1122356778889999999999999988643  32222   346677788899


Q ss_pred             hcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CcchHHHHH--
Q 044256          209 KNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE--TFTCNIFIDGLCKNGHVLEVMELFPTLEISN-CELFVEIFN--  283 (363)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~--  283 (363)
                      ..+++..|..++.++....        ......|+  ...+...+..+...+++.+|.+.|.++.... ...+...+.  
T Consensus       189 ~~~d~~~a~~~~~ki~~~~--------~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~  260 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKT--------FKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPV  260 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHH--------HHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhh--------cccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHH
Confidence            9999999998887764321        11111222  2345666777788899999998888875431 111222121  


Q ss_pred             --HHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc--CChhHHHHHHHHHH
Q 044256          284 --SLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE--GQIKKENYLLLSME  341 (363)
Q Consensus       284 --~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~  341 (363)
                        .++.+..-.+....-..+.........-++...|..++.+|...  .+|+.+.+.|....
T Consensus       261 L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L  322 (445)
T 4b4t_P          261 LSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVL  322 (445)
T ss_dssp             HHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSST
T ss_pred             HHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHh
Confidence              11111111221122222233322222235778888899888653  45666666665544

>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=91.48  E-value=1.7  Score=29.48  Aligned_cols=70  Identities=7%  Similarity=-0.003  Sum_probs=53.5

Q ss_pred             CCCCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 044256           18 CYRPLNDVTFNSLIKGFCMEGN---IRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNG   88 (363)
Q Consensus        18 ~~~p~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   88 (363)
                      +..| ++.+--.+..++.+..+   ..+++.+++.+.+.+..-....+-.|.-++.+.|+++.|.+..+.+.+.
T Consensus        35 ~~~v-s~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           35 GPTA-TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGGS-CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCC-ChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            4456 77777777777877765   4578999999887752123455667778899999999999999999984

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.11  E-value=7.6  Score=37.72  Aligned_cols=118  Identities=8%  Similarity=0.074  Sum_probs=81.4

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cC------------------cchHHHHHHHHHHHHhcCChHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----NC------------------ELFVEIFNSLIRGCCKFGIFEIASE  300 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~------------------~~~~~~~~~li~~~~~~~~~~~a~~  300 (363)
                      ++..--.+..++...|++++|.+.|.+....    ..                  ..-..-|..++..+.+.+.++.+.+
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~  920 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALE  920 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3333334567788899999999999875311    00                  0012346778888889999999998


Q ss_pred             HHHHhhhCCCC--cc--HHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhhc
Q 044256          301 LFNKLSCKNLV--AD--VVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISFLQK  362 (363)
Q Consensus       301 ~~~~~~~~~~~--~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  362 (363)
                      +-....+...+  ++  ...|..+..++...|++++|...+-.+.....  -...+..|+..++..
T Consensus       921 fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~~lce~  984 (1139)
T 4fhn_B          921 FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVNQLTKQ  984 (1139)
T ss_dssp             HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHHHHHhC
Confidence            88777653211  21  23688899999999999999999988877543  356677777766644

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.00  E-value=2.5  Score=29.95  Aligned_cols=103  Identities=6%  Similarity=0.002  Sum_probs=66.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCc-------ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCc
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFG-CRPNV-------TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGI   95 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   95 (363)
                      ..++..-+..+...|.++.|+-+.+.+.... ..|+.       .++..+.+++...+++..|...|++.++......+.
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~   99 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKT   99 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            3456666788889999999999888866541 23442       245667788889999999999999865443211000


Q ss_pred             ------------------cCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256           96 ------------------YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        96 ------------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  126 (363)
                                        ...+...--.+..+|.+.+++++|+.+++.+
T Consensus       100 ~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          100 SKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             -----------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             CCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                              1112234445667777777777777776654

>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=90.90  E-value=2.6  Score=28.57  Aligned_cols=63  Identities=11%  Similarity=0.229  Sum_probs=50.6

Q ss_pred             CHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHH
Q 044256           39 NIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLID  108 (363)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  108 (363)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++|+-++..-       .+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-------~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-------GPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-------TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-------CCchhhHHHHHH
Confidence            344566666777777889999999999999999999999999999998763       455667877664

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.71  E-value=4.8  Score=31.23  Aligned_cols=114  Identities=14%  Similarity=0.190  Sum_probs=70.5

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc----cHHHHHHHHHhcCChh
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT----TCDTLITGLRRTGNMN   76 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~l~~~~~~~~~~~   76 (363)
                      .|++++|+.....-++.  .|.|...-..++..++-.|++++|..=++...+.  .|+..    .|..+|++        
T Consensus        10 ~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l--~p~~~~~a~~yr~lI~a--------   77 (273)
T 1zbp_A           10 EGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKA--------   77 (273)
T ss_dssp             TTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH--------
T ss_pred             CCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhhHHHHHHHHHHHH--------
Confidence            36788888888888776  7778888888899999999999998888887765  34432    23333322        


Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHH--hcCCHHHHHHHHHHHHHc
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLC--KDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~  129 (363)
                        ...=.++.. |+..+..+.....-...++.+..  ..|+.+.|.++-.+..+.
T Consensus        78 --E~~R~~vfa-G~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 --AQARKDFAQ-GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             --HHHHHHHTT-SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHc-CCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence              222222222 22221112222333444555544  458888888888887664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.69  E-value=2.9  Score=28.75  Aligned_cols=72  Identities=8%  Similarity=-0.062  Sum_probs=42.1

Q ss_pred             cchHHHHHHHHHHHHhcCC---hHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          276 ELFVEIFNSLIRGCCKFGI---FEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       276 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      .|+..+-..+..++.+..+   ..+++.+++.+...+..-.......+.-++.+.|++++|.+..+.+++  +.|+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            4555555556666665554   345666666666543222333444455567777777777777777777  45654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.49  E-value=5.7  Score=31.75  Aligned_cols=156  Identities=12%  Similarity=-0.010  Sum_probs=80.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      .|.++..-|.+.+++++|++++..-..               .+.+.|+...|-++..-        +.+-..+.+++++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~l--------lvev~~~~~~~~~   91 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFY--------LLEVYDLAEVKVD   91 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHH--------HHHHHHHTTCCCS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHH--------HHHHHHHcCCCCC
Confidence            455555566666666666666543221               13344554444433222        2333344566667


Q ss_pred             hHHHHHHHHHHHhcCCHH-HHHHHHHHHHh----cc--CcchHHHHHHHHHHHHhcCChHHHHHHHH-------------
Q 044256          244 TFTCNIFIDGLCKNGHVL-EVMELFPTLEI----SN--CELFVEIFNSLIRGCCKFGIFEIASELFN-------------  303 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~-------------  303 (363)
                      ......++..+......+ .=.++++.+++    .+  ..-++.....+...|.+.|++.+|...|-             
T Consensus        92 ~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~  171 (312)
T 2wpv_A           92 DISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDL  171 (312)
T ss_dssp             HHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHH
Confidence            666666666655432111 11233333332    11  12356777888888888888888877552             


Q ss_pred             ---HhhhC--CCCccHHHH-HHHHHHHHccCChhHHHHHHHHHHH
Q 044256          304 ---KLSCK--NLVADVVAY-NILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       304 ---~~~~~--~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                         .....  |.+-+...| ...+-.|.-.|+...|..+++...+
T Consensus       172 l~~w~~~~~~~~~~e~dlf~~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          172 LWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHTTCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence               11121  322222222 1223345567888888888887653

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.17  E-value=3.7  Score=29.11  Aligned_cols=65  Identities=6%  Similarity=-0.028  Sum_probs=47.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCcH-------hHHHHHHHHHHhcCChhHHHHHHHHHHHh
Q 044256          162 IFTYTPLLNGYCLVGKVNVAIALFDSMARK-GFMPDV-------FSYSVLINGYCKNFNVEEAMNVSREMILN  226 (363)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (363)
                      ..++-.-+..+...|.++.|+-+.+.+... +..|+.       .++..+.+++...+++..|...|++.++.
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            345566678888899999999888875543 112331       25566778899999999999999987654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.97  E-value=13  Score=34.96  Aligned_cols=257  Identities=12%  Similarity=0.021  Sum_probs=133.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccH--HHHHHHHHhcCChhHHHHHHHHHHhccCCCCCc-cCCchhhHHHHHHHH
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTC--DTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGI-YKPNVFCYGSLIDGL  110 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~ll~~~  110 (363)
                      ....|+.++++.++...+..+-..+..+-  ..+.-+.+..|..+++..++...........+. -.+....-.++.-+.
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            34556666676666554431101122211  223334456666667788777766533000000 001122223333333


Q ss_pred             HhcCC-HHHHHHHHHHHHHcCCCcch---------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 044256          111 CKDRL-VDQTKDLFMEMKDKGINANT---------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNV  180 (363)
Q Consensus       111 ~~~~~-~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  180 (363)
                      +-.|. -+++.+.+..+....-....         .+...|+.+....++..+.+.. ..+..-...+.-++...|+.+.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGG
T ss_pred             HhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHH
Confidence            33332 24556666665543211101         3445677666677777666532 2222223333444557899999


Q ss_pred             HHHHHHHHHHcCCCCcHhHHH---HHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhc
Q 044256          181 AIALFDSMARKGFMPDVFSYS---VLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKN  257 (363)
Q Consensus       181 a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  257 (363)
                      +..+.+.+.... .|. .-|.   ++.-+|+-.|+.....++++.+....             ..+..-...+.-++...
T Consensus       543 ~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-------------~d~VRraAViaLGlI~~  607 (963)
T 4ady_A          543 ADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-------------NDDVRRAAVIALGFVLL  607 (963)
T ss_dssp             GHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-------------CHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-------------cHHHHHHHHHHHHhhcc
Confidence            999988887641 222 2333   23345677888777665666665431             11222223333344556


Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCCh-HHHHHHHHHhhh
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIF-EIASELFNKLSC  307 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~  307 (363)
                      |+.+.+.++++.+.+.+ .|...--..+..+....|+. .++..++..+..
T Consensus       608 g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          608 RDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             SSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            77777788887776655 56666555565666656654 577888888865

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.49  E-value=5  Score=33.93  Aligned_cols=98  Identities=6%  Similarity=-0.123  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC---CCCccHHH--HH
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISN--CELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK---NLVADVVA--YN  318 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~  318 (363)
                      +...+...|.+.|+++.|.+.+.++...-  ...-...+..+++.+...+++..+...+.++...   +-.|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56678899999999999999999998653  2334567888899999999999999999987642   22233221  11


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHc
Q 044256          319 ILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       319 ~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .-...+...+++.+|.+.|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1122345678999999988887654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.18  E-value=6.4  Score=33.30  Aligned_cols=64  Identities=6%  Similarity=-0.166  Sum_probs=44.6

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           61 TCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      ++..+...|.+.|+++.|.+.|.++......    ...-...+-.+++.+...+++..+...+.+...
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~----~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~  196 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAIS----TGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNS  196 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTC----CCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC----hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            5667777788888888888888887765411    122355667777778788888888777777654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.09  E-value=9.1  Score=29.72  Aligned_cols=56  Identities=18%  Similarity=0.253  Sum_probs=44.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           67 TGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ....+.|++++++.....-++..       |.|...-..++..+|-.|++++|.+-++...+.
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-------P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-------PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-------CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34567788888888888877764       677888888888999999999998888887765

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=86.05  E-value=4.1  Score=25.95  Aligned_cols=76  Identities=16%  Similarity=0.021  Sum_probs=53.2

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHH--HHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIK--GFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      ..++|..+-+++...   + + .-...+|+  .+...|++++|..+.+.+.    .||...|..|  +-.+.|..+++..
T Consensus        22 ~HqEA~tIAdwL~~~---~-~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~   90 (116)
T 2p58_C           22 YHEEANCIAEWLHLK---G-E-EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLAL--CEYRLGLGSALES   90 (116)
T ss_dssp             CHHHHHHHHHHHHHT---T-C-HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHH--HHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC---C-c-HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHH
Confidence            457788888888774   3 3 33333443  4678899999998877665    6888877665  3457788888888


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .+..+...+
T Consensus        91 rL~~la~sg   99 (116)
T 2p58_C           91 RLNRLARSQ   99 (116)
T ss_dssp             HHHHHTTCC
T ss_pred             HHHHHHhCC
Confidence            887777765

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=84.58  E-value=3.8  Score=28.65  Aligned_cols=49  Identities=12%  Similarity=0.095  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           41 RDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        41 ~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      +++.++|..|...||--... -|......+-..|++.+|.++|+.-++..
T Consensus        82 ~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~  131 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQ  131 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            34778888888777655443 45566666777788888888888777654

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.50  E-value=16  Score=30.32  Aligned_cols=171  Identities=11%  Similarity=-0.037  Sum_probs=104.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCC---cHhHHHHHHHHHHhc-CChhHHHHHHHHHHHhhHHHHHHHhHhc
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARK-GFMP---DVFSYSVLINGYCKN-FNVEEAMNVSREMILNGFKKIFNEMKLC  238 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~  238 (363)
                      ....|...|.+.|+.++...++...... +..|   .......++..+... +..+.-.++..+.++..        ...
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a--------~~~   92 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA--------KQE   92 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH--------HHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH--------HHH
Confidence            4566888999999999999888876543 1112   233456677777664 33344444444333221        000


Q ss_pred             -CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-----chHHHHHHHHHHHHhcCChHHHHHHHHHhhhC--CC
Q 044256          239 -NVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-----LFVEIFNSLIRGCCKFGIFEIASELFNKLSCK--NL  310 (363)
Q Consensus       239 -~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~  310 (363)
                       ..--....=.-++..|...|++.+|.+++..+.+.=-.     .-..++..-+..|...+++.++...+......  .+
T Consensus        93 ~r~flr~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai  172 (394)
T 3txn_A           93 KRTFLRQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAI  172 (394)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccC
Confidence             00000111125778899999999999999888754111     22445667778889999999999999887643  12


Q ss_pred             CccHHHHHHH----HHHHH-ccCChhHHHHHHHHHHH
Q 044256          311 VADVVAYNIL----IHALG-KEGQIKKENYLLLSMEE  342 (363)
Q Consensus       311 ~~~~~~~~~l----i~~~~-~~g~~~~a~~~~~~m~~  342 (363)
                      .+++..-..+    ...+. ..++|.+|...|-+..+
T Consensus       173 ~~~p~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          173 YCPPKVQGALDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence            2344332221    22345 78999999888777653

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.33  E-value=3.9  Score=26.00  Aligned_cols=76  Identities=13%  Similarity=-0.008  Sum_probs=54.0

Q ss_pred             hhhhHHHHHHHHHHcCCCCCchhhHHHHHH--HHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            3 KVLGALMAFGSFIRRCYRPLNDVTFNSLIK--GFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         3 ~~~~A~~~~~~~~~~~~~p~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      ..++|..+-+++...   + + .-...+|+  .+...|++++|..+.+.+.    .||...|..|  +-.+.|..+++..
T Consensus        21 ~HqEA~tIAdwL~~~---~-~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~   89 (115)
T 2uwj_G           21 CHEEALCIAEWLERL---G-Q-DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFAL--CEWHLGLGAALDR   89 (115)
T ss_dssp             CHHHHHHHHHHHHHT---T-C-HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHH--HHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC---C-c-HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHH
Confidence            457888888888774   3 3 33333443  4678899999988776655    6888877665  4458888888888


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .+..+...+
T Consensus        90 rL~~la~sg   98 (115)
T 2uwj_G           90 RLAGLGGSS   98 (115)
T ss_dssp             HHHHHHTCS
T ss_pred             HHHHHHhCC
Confidence            887887766

>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=84.26  E-value=4.9  Score=29.56  Aligned_cols=53  Identities=11%  Similarity=0.033  Sum_probs=33.5

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           37 EGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        37 ~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      .++..++.++|..|...||.-... -|......+-..|++.+|.++|+.-++..
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            344667777777777766554433 34555666666777777777777666654

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=83.78  E-value=4.6  Score=28.66  Aligned_cols=49  Identities=8%  Similarity=0.042  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           41 RDASQLVKKMATFGCRPNVT-TCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        41 ~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      +++.++|..|...||--... -|......+-..|++.+|.++|..-++.+
T Consensus        77 ~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~  126 (164)
T 2wvi_A           77 NEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQK  126 (164)
T ss_dssp             SCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            44677888888877665543 45566666777888888888888777765

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.59  E-value=19  Score=29.03  Aligned_cols=25  Identities=16%  Similarity=0.175  Sum_probs=17.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHH
Q 044256          163 FTYTPLLNGYCLVGKVNVAIALFDS  187 (363)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~  187 (363)
                      .+|.++..-|.+.+++++|++++..
T Consensus        36 Q~~RTi~~Ry~~~k~y~eAidLL~~   60 (336)
T 3lpz_A           36 QETRLVAARYSKQGNWAAAVDILAS   60 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            3556666677777888888776643

---

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	363
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.43
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.42
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.38
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.37
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.37
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.36
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.32
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.27
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.95
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.95
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.92
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.92
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.87
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.85
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.81
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.77
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.75
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.73
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.71
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.55
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.46
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.36
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.36
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.36
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.35
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.23
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.21
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.17
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.16
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.14
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.12
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.08
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.07
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.97
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.63
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.62
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.6
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.51
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.02
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.91
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.69
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.94
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.93
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.67
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.85
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.68
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	90.72

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=2e-23  Score=174.64  Aligned_cols=334  Identities=12%  Similarity=0.025  Sum_probs=267.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|++.|+.+.+.  .|.++.++..+..++.+.|++++|+..|++..+.. +-+..+|..+..++.+.|++++|..
T Consensus        12 ~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~   88 (388)
T d1w3ba_          12 AGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIE   88 (388)
T ss_dssp             HTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccc
Confidence            38999999999999987  78789999999999999999999999999998874 3456789999999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHH----------------------------------HHHHhcCCHHHHHHHHHHH
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLI----------------------------------DGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll----------------------------------~~~~~~~~~~~a~~~~~~~  126 (363)
                      .+.......       +.+...+....                                  ......+....+...+.+.
T Consensus        89 ~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          89 HYRHALRLK-------PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHC-------TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccc-------cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHh
Confidence            999988764       22222222222                                  2233334444444444444


Q ss_pred             HHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhH
Q 044256          127 KDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS  199 (363)
Q Consensus       127 ~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  199 (363)
                      ....+....       .+...+++++|...++...+.. +-+...+..+...+...|++++|...++.....+ +.+...
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  239 (388)
T d1w3ba_         162 IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             hccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHH
Confidence            443222111       4567899999999999988764 3456788889999999999999999999988764 346677


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV  279 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  279 (363)
                      +..+...+.+.|++++|...++++++..             +.+..++..+...+...|++++|.+.++...... +.+.
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-------------p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  305 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-------------PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHA  305 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-------------SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-Cccc
Confidence            8888889999999999999988877654             2346788889999999999999999999988775 7778


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALD-VDTFNTLMIS  358 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~  358 (363)
                      ..+..+...+...|++++|.+.|++..+.. +-+..+|..+..++.+.|++++|...|++.++  +.|+ ...|..+-..
T Consensus       306 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~  382 (388)
T d1w3ba_         306 DSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNT  382 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            899999999999999999999999998864 44678899999999999999999999999998  5675 6677777777


Q ss_pred             HhhcC
Q 044256          359 FLQKE  363 (363)
Q Consensus       359 ~~~~~  363 (363)
                      |.+.|
T Consensus       383 ~~~~~  387 (388)
T d1w3ba_         383 LKEMQ  387 (388)
T ss_dssp             HHHTC
T ss_pred             HHHcC
Confidence            76543

>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=99.89  E-value=4.1e-19  Score=148.12  Aligned_cols=302  Identities=12%  Similarity=0.024  Sum_probs=241.8

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHH------------
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITG------------   68 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~------------   68 (363)
                      .|++++|+..|+.+.+.  .|.++.+|..+..++.+.|++++|+..+....... +.+...+......            
T Consensus        46 ~~~~~~A~~~~~~al~~--~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  122 (388)
T d1w3ba_          46 CRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQ  122 (388)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHhhhhccccccccccccccccc-ccccccccccccccccccccccccc
Confidence            48899999999999987  77789999999999999999999999999988764 2222222222222            


Q ss_pred             ----------------------HHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 044256           69 ----------------------LRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEM  126 (363)
Q Consensus        69 ----------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  126 (363)
                                            ....+....+...+.......       +.+...+..+...+...|+++.|...+++.
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  195 (388)
T d1w3ba_         123 AYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-------PNFAVAWSNLGCVFNAQGEIWLAIHHFEKA  195 (388)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccchhhhhHHHHHHhhccC-------cchhHHHHhhcccccccCcHHHHHHHHHHH
Confidence                                  222334444555555555432       445677888889999999999999999998


Q ss_pred             HHcCCCcch-------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhH
Q 044256          127 KDKGINANT-------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFS  199 (363)
Q Consensus       127 ~~~~~~~~~-------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  199 (363)
                      .+..+....       .+...|++++|...+......+ +.+...+..+...+.+.|++++|+..|++..+.. +-+..+
T Consensus       196 l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  273 (388)
T d1w3ba_         196 VTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDA  273 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHH
T ss_pred             HHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            876433222       5678999999999999988875 4456778888999999999999999999988863 335678


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchH
Q 044256          200 YSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFV  279 (363)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  279 (363)
                      +..+...+...|++++|...++......             +.+...+..+...+...|++++|+..|++..+.. |.+.
T Consensus       274 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~  339 (388)
T d1w3ba_         274 YCNLANALKEKGSVAEAEDCYNTALRLC-------------PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFA  339 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhhhccC-------------CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            8899999999999999999988876653             4566788888999999999999999999998765 5567


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCC
Q 044256          280 EIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQ  329 (363)
Q Consensus       280 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  329 (363)
                      .++..+..+|.+.|++++|...|+++.+.. |-+...|..+..+|.+.||
T Consensus       340 ~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         340 AAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            889999999999999999999999998874 3468889999999888775

>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=99.75  E-value=2.4e-15  Score=122.04  Aligned_cols=275  Identities=12%  Similarity=-0.024  Sum_probs=197.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHH
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSL  106 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  106 (363)
                      +-.....+.+.|++++|+..|+++++.. +-+..+|..+..++...|++++|...|++..+..       +.+...|..+
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-------p~~~~~~~~l   93 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-------PDNQTALMAL   93 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-------cccccccccc
Confidence            3456777889999999999999999874 3357789999999999999999999999999864       4567888999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHH
Q 044256          107 IDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFD  186 (363)
Q Consensus       107 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  186 (363)
                      ..++...|++++|.+.+++...................             ...+.......+..+...+...++...+.
T Consensus        94 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_          94 AVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGA-------------GGAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC----------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccchhhHHHhccchHHHHHhhhhhh-------------hhcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            99999999999999999998875432211100000000             00011111112233445566778888888


Q ss_pred             HHHHcC-CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 044256          187 SMARKG-FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVME  265 (363)
Q Consensus       187 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  265 (363)
                      ...... -.++...+..+...+...|++++|...+++.....             +.+...|..+..++...|++++|.+
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------------p~~~~~~~~lg~~~~~~g~~~~A~~  227 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-------------PNDYLLWNKLGATLANGNQSEEAVA  227 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-------------cccccchhhhhhcccccccchhHHH
Confidence            776542 23356677788888889999999998888876653             2346678888889999999999999


Q ss_pred             HHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC----------CCccHHHHHHHHHHHHccCChhHHHH
Q 044256          266 LFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN----------LVADVVAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----------~~~~~~~~~~li~~~~~~g~~~~a~~  335 (363)
                      .|+++.+.. +-+..++..+..+|.+.|++++|...|++..+..          .......|..+-.++...|+.+.+..
T Consensus       228 ~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         228 AYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999988765 5567788899999999999999999999887631          11123456666666666777665544


Q ss_pred             H
Q 044256          336 L  336 (363)
Q Consensus       336 ~  336 (363)
                      .
T Consensus       307 ~  307 (323)
T d1fcha_         307 A  307 (323)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.74  E-value=1.7e-15  Score=122.95  Aligned_cols=237  Identities=12%  Similarity=0.019  Sum_probs=174.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+++.  .|.++.+|..+..++...|++++|...|++..+.. +-+...|..+..++...|++++|.+
T Consensus        32 ~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~  108 (323)
T d1fcha_          32 EGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACE  108 (323)
T ss_dssp             TTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccccccccc
Confidence            48999999999999987  78789999999999999999999999999998874 3456788888999999999999999


Q ss_pred             HHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCC-C
Q 044256           81 LHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGL-N  159 (363)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~  159 (363)
                      .++.+....        |+........................           ..+...+.+.++...+.+..+... .
T Consensus       109 ~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~a~~~~~~al~~~p~~  169 (323)
T d1fcha_         109 ILRDWLRYT--------PAYAHLVTPAEEGAGGAGLGPSKRIL-----------GSLLSDSLFLEVKELFLAAVRLDPTS  169 (323)
T ss_dssp             HHHHHHHTS--------TTTGGGCC---------------CTT-----------HHHHHHHHHHHHHHHHHHHHHHSTTS
T ss_pred             chhhHHHhc--------cchHHHHHhhhhhhhhcccccchhhH-----------HHHHHhhHHHHHHHHHHHHHHHhhcc
Confidence            999998754        32211110000000000000000000           012233445556666666554431 2


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          160 PVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                      ++..++..+...+...|++++|+..|+...... +-+...|..+...|...|++++|...++++++..            
T Consensus       170 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------  236 (323)
T d1fcha_         170 IDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ------------  236 (323)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------
T ss_pred             cccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh------------
Confidence            345678888899999999999999999988763 3357788889999999999999999998877653            


Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044256          240 VVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS  273 (363)
Q Consensus       240 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  273 (363)
                       +-+...+..+..+|...|++++|+..|++.++.
T Consensus       237 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         237 -PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence             235667888999999999999999999998764

>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=99.45  E-value=5.7e-11  Score=96.94  Aligned_cols=288  Identities=12%  Similarity=-0.009  Sum_probs=198.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccC
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV------TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYK   97 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   97 (363)
                      +.........+...|++++|++++++.++.  .|+.      .++..+..++...|++++|...|++..+.....+. ..
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~-~~   88 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV-WH   88 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc-hH
Confidence            444555566778999999999999998876  3432      35667788899999999999999998764311000 11


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 044256           98 PNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGK  177 (363)
Q Consensus        98 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (363)
                      .....+..+...+...|++..+...+.+.....                    ..............+..+...+...|+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~--------------------~~~~~~~~~~~~~~~~~la~~~~~~~~  148 (366)
T d1hz4a_          89 YALWSLIQQSEILFAQGFLQTAWETQEKAFQLI--------------------NEQHLEQLPMHEFLVRIRAQLLWAWAR  148 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------------HHTTCTTSTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------------------HhcccchhhHHHHHHHHHHHHHHHhcc
Confidence            123455667778888899999998888765421                    000000001112355667788889999


Q ss_pred             HHHHHHHHHHHHHcC----CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC--ChHHHHHHH
Q 044256          178 VNVAIALFDSMARKG----FMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP--ETFTCNIFI  251 (363)
Q Consensus       178 ~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ll  251 (363)
                      ++.+...+.......    .......+......+...+....+...+.......        ...+..+  ....+..+.
T Consensus       149 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~--------~~~~~~~~~~~~~~~~~~  220 (366)
T d1hz4a_         149 LDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLL--------GNGKYHSDWISNANKVRV  220 (366)
T ss_dssp             HHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--------TTSCCCHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH--------HHhcccCchHHHHHHHHH
Confidence            999999998876642    22234455566667788899999987776654321        1111111  123455666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccC---cchHHHHHHHHHHHHhcCChHHHHHHHHHhhh----CCCCcc-HHHHHHHHHH
Q 044256          252 DGLCKNGHVLEVMELFPTLEISNC---ELFVEIFNSLIRGCCKFGIFEIASELFNKLSC----KNLVAD-VVAYNILIHA  323 (363)
Q Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~  323 (363)
                      ..+...|++++|...++.......   ......+..+..++...|++++|...++++..    .+..|+ ...+..+..+
T Consensus       221 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  300 (366)
T d1hz4a_         221 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQL  300 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHH
Confidence            778889999999999998765432   22345566788899999999999999998763    233333 4567778889


Q ss_pred             HHccCChhHHHHHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~  342 (363)
                      |.+.|++++|.+.+++.++
T Consensus       301 ~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         301 YWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999998765

>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=99.43  E-value=8.5e-11  Score=95.88  Aligned_cols=301  Identities=9%  Similarity=-0.068  Sum_probs=198.5

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCc-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----cccHHHHHHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLN-----DVTFNSLIKGFCMEGNIRDASQLVKKMATFGC-RPN----VTTCDTLITGLR   70 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~l~~~~~   70 (363)
                      .|++++|+++|+..++.  .|.+     ..++..+..++...|++++|+..|++..+... .++    ..++..+...+.
T Consensus        25 ~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  102 (366)
T d1hz4a_          25 DGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  102 (366)
T ss_dssp             TTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            48999999999999886  4522     34677888999999999999999998875421 112    234556677888


Q ss_pred             hcCChhHHHHHHHHHHhccCCCCCccCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHH
Q 044256           71 RTGNMNLTLKLHQEMVNGMGDFGGIYKP-NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRL  149 (363)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  149 (363)
                      ..|++..+...+...............+ ....+..+...+...|+++.+...+...........               
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  167 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQ---------------  167 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSC---------------
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhh---------------
Confidence            9999999999998876532111000111 223556677888899999999999988876432211               


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 044256          150 LELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK----GFMP--DVFSYSVLINGYCKNFNVEEAMNVSREM  223 (363)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (363)
                              .......+......+...++...+...+......    +..+  ....+..+...+...|++++|...++..
T Consensus       168 --------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  239 (366)
T d1hz4a_         168 --------PQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT  239 (366)
T ss_dssp             --------GGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             --------hhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence                    1223345555667777888888888887765442    1111  1234455566777889999998766654


Q ss_pred             HHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCcc-hHHHHHHHHHHHHhcCChHHH
Q 044256          224 ILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEIS----NCEL-FVEIFNSLIRGCCKFGIFEIA  298 (363)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a  298 (363)
                      ....         ..........+..+..++...|++++|...++.+...    +..| ...++..+..+|...|++++|
T Consensus       240 ~~~~---------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  310 (366)
T d1hz4a_         240 AKPE---------FANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDA  310 (366)
T ss_dssp             CCCC---------CTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhc---------cccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHH
Confidence            3211         0011122345566778889999999999999887632    3233 345778888899999999999


Q ss_pred             HHHHHHhhhC----CCCc----cHHHHHHHHHHHHccCChhHHHH
Q 044256          299 SELFNKLSCK----NLVA----DVVAYNILIHALGKEGQIKKENY  335 (363)
Q Consensus       299 ~~~~~~~~~~----~~~~----~~~~~~~li~~~~~~g~~~~a~~  335 (363)
                      .+.+++..+.    |...    ....+..++..+...++.+++.+
T Consensus       311 ~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         311 QRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            9999887643    2211    12334455566666676666654

>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=99.42  E-value=1.1e-10  Score=93.44  Aligned_cols=219  Identities=8%  Similarity=-0.047  Sum_probs=160.9

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-ChhHHHHHHHHHHhccCCCCCccCCc
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-NMNLTLKLHQEMVNGMGDFGGIYKPN   99 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~   99 (363)
                      |....+|+.+...+.+.+.+++|+.+++++++.+ +-+...|+....++...| ++++|+..++...+..       +.+
T Consensus        40 p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-------p~~  111 (315)
T d2h6fa1          40 DKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-------PKN  111 (315)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-------TTC
T ss_pred             HHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-------Hhh
Confidence            3336678888888899999999999999999874 335567888888888876 5899999999998865       667


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          100 VFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       100 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ..+|+.+...+.+.|++++|+..++++.+..                            +.+...|..+...+.+.|+++
T Consensus       112 ~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d----------------------------p~n~~a~~~~~~~~~~~~~~~  163 (315)
T d2h6fa1         112 YQVWHHRRVLVEWLRDPSQELEFIADILNQD----------------------------AKNYHAWQHRQWVIQEFKLWD  163 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHHHHTCCT
T ss_pred             hhHHHHHhHHHHhhccHHHHHHHHhhhhhhh----------------------------hcchHHHHHHHHHHHHHHhhH
Confidence            8899999999999999999999999988752                            335778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC------hhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHH
Q 044256          180 VAIALFDSMARKGFMPDVFSYSVLINGYCKNFN------VEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG  253 (363)
Q Consensus       180 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~  253 (363)
                      +|+..++.+.+... .+...|+.+...+.+.+.      +++|+..+.++++..             +.+...|..+...
T Consensus       164 ~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-------------P~~~~~~~~l~~l  229 (315)
T d2h6fa1         164 NELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-------------PHNESAWNYLKGI  229 (315)
T ss_dssp             THHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-------------TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-------------CCchHHHHHHHHH
Confidence            99999999988742 356677776666665554      456776666665543             2345666666555


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCc-chHHHHHHHHHHHH
Q 044256          254 LCKNGHVLEVMELFPTLEISNCE-LFVEIFNSLIRGCC  290 (363)
Q Consensus       254 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~  290 (363)
                      +.. ...+++.+.++...+.... .+...+..++..|.
T Consensus       230 l~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         230 LQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             HHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            444 4457777777777654322 23445555555554

>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=99.41  E-value=9.6e-11  Score=93.63  Aligned_cols=213  Identities=7%  Similarity=0.008  Sum_probs=168.5

Q ss_pred             hhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHhcCCCCCcccHHHHHHHH
Q 044256            4 VLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCME--------------GNIRDASQLVKKMATFGCRPNVTTCDTLITGL   69 (363)
Q Consensus         4 ~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~   69 (363)
                      .+.+..+|++++..  .|.++..|...+..+.+.              +..++|..+|++..+...+.+...|...+...
T Consensus        32 ~~Rv~~vyerAl~~--~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          32 TKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            45678899999887  666888998887765443              34578999999998764444556788888889


Q ss_pred             HhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcch--------hhhccC
Q 044256           70 RRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANT--------LLCKKT  141 (363)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~  141 (363)
                      .+.|+.+.|..+|+.+.+..      ......+|...+....+.|+++.|.++|++..+..+....        .....|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~------~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~  183 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIE------DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSK  183 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSS------SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSC
T ss_pred             HhcccHHHHHHHHHHHHHHh------cCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcc
Confidence            99999999999999998854      1222457899999999999999999999999887654443        123468


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCc--HhHHHHHHHHHHhcCChhHHHH
Q 044256          142 KLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKG-FMPD--VFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                      +.+.|..+|+.+.... +.+...|...+..+.+.|+++.|..+|++..... ..|+  ...|...+..-...|+.+.+..
T Consensus       184 ~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~  262 (308)
T d2onda1         184 DKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             CHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             CHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8999999999998863 5567889999999999999999999999988763 3433  3478888887788999999998


Q ss_pred             HHHHHHH
Q 044256          219 VSREMIL  225 (363)
Q Consensus       219 ~~~~~~~  225 (363)
                      +++++.+
T Consensus       263 ~~~r~~~  269 (308)
T d2onda1         263 VEKRRFT  269 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877654

>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=99.38  E-value=2.8e-11  Score=94.33  Aligned_cols=120  Identities=8%  Similarity=-0.100  Sum_probs=91.0

Q ss_pred             hhhhhHHHHHHHHHHcCC--CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHH
Q 044256            2 SKVLGALMAFGSFIRRCY--RPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~--~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .+.+.|+.-++++.....  .|..+.+|..+..+|.+.|++++|+..|++.++.. +-+..+|+.+..++.+.|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            456677777777775422  12234577778888888899999999998888764 345677888888888888999999


Q ss_pred             HHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           80 KLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      ..|+++.+..       +.+..++..+..++...|+++.|...|++..+.
T Consensus        92 ~~~~~al~~~-------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_          92 EAFDSVLELD-------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HHHHHHHHHC-------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHH-------hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9988888854       445667888888888888888888888887764

>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=99.37  E-value=4.1e-10  Score=89.98  Aligned_cols=246  Identities=7%  Similarity=-0.062  Sum_probs=180.2

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCcchhhh
Q 044256           60 TTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR-LVDQTKDLFMEMKDKGINANTLLC  138 (363)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~  138 (363)
                      ..++.+...+.+.+.+++|+++++.+++..       |-+...|+....++...| ++++|+..+++..+..        
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-------P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~--------  108 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-------AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--------  108 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-------CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH--------
Confidence            356667777888899999999999999965       556778898888888766 5899999998887652        


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 044256          139 KKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMN  218 (363)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  218 (363)
                                          +-+..+|..+...+.+.|++++|+..++.+.+.. +.+...|..+...+...|++++|+.
T Consensus       109 --------------------p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~  167 (315)
T d2h6fa1         109 --------------------PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQ  167 (315)
T ss_dssp             --------------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             --------------------HhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHH
Confidence                                3356789999999999999999999999999874 3368899999999999999999999


Q ss_pred             HHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCC------HHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc
Q 044256          219 VSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGH------VLEVMELFPTLEISNCELFVEIFNSLIRGCCKF  292 (363)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  292 (363)
                      .++++++.+             +.+...|+.+...+.+.+.      +++|+..+.++.+.. |.+...|..+...+...
T Consensus       168 ~~~~al~~~-------------p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~  233 (315)
T d2h6fa1         168 YVDQLLKED-------------VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDR  233 (315)
T ss_dssp             HHHHHHHHC-------------TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHC-------------CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhc
Confidence            999988765             2456677777666666554      678999999988876 66778887777665544


Q ss_pred             CChHHHHHHHHHhhhCCCC-ccHHHHHHHHHHHHcc--CC-------hhHHHHHHHHHHHcCCCCCHHH-HHHHHH
Q 044256          293 GIFEIASELFNKLSCKNLV-ADVVAYNILIHALGKE--GQ-------IKKENYLLLSMEENGCALDVDT-FNTLMI  357 (363)
Q Consensus       293 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~--g~-------~~~a~~~~~~m~~~g~~p~~~~-~~~ll~  357 (363)
                       ..+++.+.++...+.... .+...+..++..|...  +.       +++|..++..+.+. +.|-..- |.-+.+
T Consensus       234 -~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~ka~~l~~~l~~~-~DpiR~~yw~~~~~  307 (315)
T d2h6fa1         234 -GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKE-KDTIRKEYWRYIGR  307 (315)
T ss_dssp             -CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT-TCGGGHHHHHHHHH
T ss_pred             -ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHH
Confidence             467777888777654322 2455666666666432  33       44455555554432 4443333 434333

>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=99.37  E-value=3.1e-10  Score=90.62  Aligned_cols=189  Identities=7%  Similarity=-0.059  Sum_probs=147.1

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHH
Q 044256          141 TKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVS  220 (363)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  220 (363)
                      +..++|..+++..++...+.+...|...+..+.+.|+++.|..+|+.+.+.........|...+..+.+.|+.+.|..+|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            34556667777776654455566788888889999999999999999987643333557889999999999999999888


Q ss_pred             HHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHH-HHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHH
Q 044256          221 REMILNGFKKIFNEMKLCNVVPETFTCNIFIDG-LCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIAS  299 (363)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  299 (363)
                      +++.+..             +.+...|...... +...|+.+.|..+|+.+.+.. +.+...|...+..+.+.|+++.|+
T Consensus       158 ~~al~~~-------------~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR  223 (308)
T d2onda1         158 KKAREDA-------------RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTR  223 (308)
T ss_dssp             HHHHTST-------------TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHhC-------------CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHH
Confidence            8776543             2344444444433 344689999999999999874 667889999999999999999999


Q ss_pred             HHHHHhhhCC-CCcc--HHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          300 ELFNKLSCKN-LVAD--VVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       300 ~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      .+|++..... ..|+  ...|...+..-...|+.+.+..+++++.+.
T Consensus       224 ~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         224 VLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999988753 2332  467888888888899999999999998774

>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=99.36  E-value=7e-12  Score=101.73  Aligned_cols=247  Identities=10%  Similarity=-0.011  Sum_probs=129.2

Q ss_pred             hhHHHHHHHHHHcCCCCCchhhHHHHHHHHHh----------cCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcC-
Q 044256            5 LGALMAFGSFIRRCYRPLNDVTFNSLIKGFCM----------EGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTG-   73 (363)
Q Consensus         5 ~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~----------~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~-   73 (363)
                      ++|+++++.+++.  .|.+...|+..-..+..          .|++++|+.+++...+.. +.+...|..+..++...+ 
T Consensus        46 ~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          46 ESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhcc
Confidence            5677777777665  56455556543333222          233566666666666543 234445555555555544 


Q ss_pred             -ChhHHHHHHHHHHhccCCCCCccCCchhhHHH-HHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHH
Q 044256           74 -NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS-LIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLE  151 (363)
Q Consensus        74 -~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  151 (363)
                       ++++|...++.+.+..       +++...+.. ....+...+.++.|+..+++..+..                     
T Consensus       123 ~~~~~a~~~~~~al~~~-------~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~---------------------  174 (334)
T d1dcea1         123 PNWARELELCARFLEAD-------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN---------------------  174 (334)
T ss_dssp             CCHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT---------------------
T ss_pred             ccHHHHHHHHHHHHhhC-------chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC---------------------
Confidence             3566666666666643       334444432 3344555566666666665554431                     


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHH
Q 044256          152 LMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKI  231 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (363)
                             +-+...|+.+...+.+.|++++|...+....+.  .|+   ...+...+...+..+++...+.......    
T Consensus       175 -------p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~----  238 (334)
T d1dcea1         175 -------FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR----  238 (334)
T ss_dssp             -------CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC----
T ss_pred             -------CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC----
Confidence                   223455666666666666666554444333222  111   1112222334455555554444433322    


Q ss_pred             HHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          232 FNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                               +++...+..+...+...++..+|...+.+..... +.+..++..+..++...|++++|.+.++++.+.
T Consensus       239 ---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         239 ---------AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             ---------CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             ---------cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence                     2233344444555555666666666666665554 445556666666666666666666666666665

>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=99.32  E-value=3.4e-11  Score=97.62  Aligned_cols=269  Identities=7%  Similarity=-0.077  Sum_probs=192.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHH----------hcCChhHHHHHHHHHHhccCCCCCc
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVT-TCDTLITGLR----------RTGNMNLTLKLHQEMVNGMGDFGGI   95 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~l~~~~~----------~~~~~~~a~~~~~~~~~~~~~~~~~   95 (363)
                      +..++....+.+..++|++++++.++.  .|+.. .|+..-..+.          ..|++++|+..++...+..      
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~------  103 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN------  103 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC------
Confidence            444444444444568999999999986  46643 4544333322          3345788999999998864      


Q ss_pred             cCCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHH-HHHHHH
Q 044256           96 YKPNVFCYGSLIDGLCKDR--LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYT-PLLNGY  172 (363)
Q Consensus        96 ~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~  172 (363)
                       +.+...|..+..++...+  ++++|...++++.+..                            +++...+. .....+
T Consensus       104 -pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~----------------------------~~~~~~~~~~~~~~~  154 (334)
T d1dcea1         104 -PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD----------------------------ERNFHCWDYRRFVAA  154 (334)
T ss_dssp             -TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC----------------------------TTCHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC----------------------------chhhhhhhhHHHHHH
Confidence             567778887777776665  4788888888877642                            23344443 344667


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHH
Q 044256          173 CLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFID  252 (363)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~  252 (363)
                      ...+.++.|+..++.+..... -+...|..+...+.+.|++++|...+.......              |..   ..+..
T Consensus       155 ~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~---~~~~~  216 (334)
T d1dcea1         155 QAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL--------------LKE---LELVQ  216 (334)
T ss_dssp             HTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--------------HHH---HHHHH
T ss_pred             HhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--------------HHH---HHHHH
Confidence            778999999999999888743 367888889999999999998876555443322              111   12233


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhH
Q 044256          253 GLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKK  332 (363)
Q Consensus       253 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  332 (363)
                      .+...+..+++...+....... +++...+..+...+...++.++|...+.+..... +.+...|..+..++.+.|++++
T Consensus       217 ~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~e  294 (334)
T d1dcea1         217 NAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKE  294 (334)
T ss_dssp             HHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHH
T ss_pred             HHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHH
Confidence            3455677788888888887665 5666677778888888999999999999988764 4467788888899999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHH
Q 044256          333 ENYLLLSMEENGCALDVDTFNT  354 (363)
Q Consensus       333 a~~~~~~m~~~g~~p~~~~~~~  354 (363)
                      |.+.+++..+  +.|+...|..
T Consensus       295 A~~~~~~ai~--ldP~~~~y~~  314 (334)
T d1dcea1         295 TLQYFSTLKA--VDPMRAAYLD  314 (334)
T ss_dssp             HHHHHHHHHH--HCGGGHHHHH
T ss_pred             HHHHHHHHHH--HCcccHHHHH
Confidence            9999999998  6786554433

>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=99.27  E-value=3e-10  Score=88.27  Aligned_cols=219  Identities=10%  Similarity=-0.081  Sum_probs=132.6

Q ss_pred             CCHHHHHHHHHHHHhcCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcC
Q 044256           38 GNIRDASQLVKKMATFGCRP---NVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDR  114 (363)
Q Consensus        38 ~~~~~a~~~~~~m~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  114 (363)
                      .+.+.++.-+++........   ...+|..+..+|.+.|++++|...|++.++..       +.++.+|+.+..++.+.|
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-------p~~~~a~~~lg~~~~~~g   85 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-------PDMPEVFNYLGIYLTQAG   85 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-------CCCHHHHhhhchHHHHHH
Confidence            34556666677776542111   12366777888899999999999999999864       556788999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 044256          115 LVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARKGFM  194 (363)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  194 (363)
                      ++++|+..|++..+..                            +.+..++..+..++...|+++.|...|+...+.. +
T Consensus        86 ~~~~A~~~~~~al~~~----------------------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p  136 (259)
T d1xnfa_          86 NFDAAYEAFDSVLELD----------------------------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-P  136 (259)
T ss_dssp             CHHHHHHHHHHHHHHC----------------------------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHhhhhhhHHHHHH----------------------------hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-c
Confidence            9999999999888752                            2234577788888888999999999998887763 2


Q ss_pred             CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCC----HHHHHHHHHHH
Q 044256          195 PDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGH----VLEVMELFPTL  270 (363)
Q Consensus       195 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----~~~a~~~~~~~  270 (363)
                      .+......+..++.+.+..+.+..+.......              .++...++ ++..+.....    .+.+...+...
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  201 (259)
T d1xnfa_         137 NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--------------DKEQWGWN-IVEFYLGNISEQTLMERLKADATDN  201 (259)
T ss_dssp             TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--------------CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSH
T ss_pred             ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--------------chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            23333333333444444444433222222111              12222222 2222222111    12222222111


Q ss_pred             HhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 044256          271 EISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCK  308 (363)
Q Consensus       271 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  308 (363)
                      .... +-...+|..+...|...|++++|...|++....
T Consensus       202 ~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         202 TSLA-EHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hhcC-cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            1111 122345666777788888888888888887765

>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=98.95  E-value=1.1e-08  Score=68.37  Aligned_cols=86  Identities=13%  Similarity=0.109  Sum_probs=79.6

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+++.  .|.++..|..+..++...|++++|+..+++..+.+ +.+...|..+..++...|++++|+.
T Consensus        16 ~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~~   92 (117)
T d1elwa_          16 VGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAKR   92 (117)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHHH
Confidence            48999999999999997  78799999999999999999999999999999886 5678889999999999999999999


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .|+...+..
T Consensus        93 ~~~~a~~~~  101 (117)
T d1elwa_          93 TYEEGLKHE  101 (117)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHhC
Confidence            999999853

>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=98.95  E-value=4.9e-08  Score=76.80  Aligned_cols=212  Identities=12%  Similarity=-0.022  Sum_probs=134.6

Q ss_pred             HHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256          116 VDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQR----GLNP-VIFTYTPLLNGYCLVGKVNVAIALFDSMAR  190 (363)
Q Consensus       116 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (363)
                      +++|.++|.+.-.       .+...+++++|...|.+..+.    +-++ -..+|..+..+|.+.|++++|...++...+
T Consensus        33 ~~~Aa~~y~~aa~-------~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~  105 (290)
T d1qqea_          33 FEEAADLCVQAAT-------IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQ  105 (290)
T ss_dssp             HHHHHHHHHHHHH-------HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-------HHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhH
Confidence            4455555544432       344455555555555544432    1111 245788889999999999999999987654


Q ss_pred             c----CC-CCcHhHHHHHHHHHHh-cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCC-ChHHHHHHHHHHHhcCCHHHH
Q 044256          191 K----GF-MPDVFSYSVLINGYCK-NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVP-ETFTCNIFIDGLCKNGHVLEV  263 (363)
Q Consensus       191 ~----~~-~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a  263 (363)
                      .    |. .....++..+...|.. .|++++|+..+++.....     .   ..+..+ -..++..+...+...|++++|
T Consensus       106 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~-----~---~~~~~~~~~~~~~~la~~~~~~g~y~~A  177 (290)
T d1qqea_         106 IFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWY-----A---QDQSVALSNKCFIKCADLKALDGQYIEA  177 (290)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH-----H---HTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHH-----H---hcCchhhhhhHHHHHHHHHHHcChHHHH
Confidence            3    21 1123455666666644 699999999998875421     1   111111 234677889999999999999


Q ss_pred             HHHHHHHHhccCcc-----h-HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC-c---cHHHHHHHHHHHHc--cCChh
Q 044256          264 MELFPTLEISNCEL-----F-VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV-A---DVVAYNILIHALGK--EGQIK  331 (363)
Q Consensus       264 ~~~~~~~~~~~~~~-----~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~---~~~~~~~li~~~~~--~g~~~  331 (363)
                      +..|+++.......     . ...+...+..+...|+++.|...+++..+.... +   .......++.++-.  .+.++
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~  257 (290)
T d1qqea_         178 SDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLS  257 (290)
T ss_dssp             HHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHH
T ss_pred             HHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHH
Confidence            99999987653111     1 123445566777889999999999999876311 1   12345666676654  34578


Q ss_pred             HHHHHHHHHHH
Q 044256          332 KENYLLLSMEE  342 (363)
Q Consensus       332 ~a~~~~~~m~~  342 (363)
                      +|+..|+++.+
T Consensus       258 eai~~y~~~~~  268 (290)
T d1qqea_         258 EHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHTTSSC
T ss_pred             HHHHHHHHHhh
Confidence            88888876543

>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=98.92  E-value=4.6e-07  Score=71.10  Aligned_cols=253  Identities=8%  Similarity=-0.078  Sum_probs=156.3

Q ss_pred             hHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHH
Q 044256            6 GALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEM   85 (363)
Q Consensus         6 ~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   85 (363)
                      ++.+++.+..+.+ .| ....+. ++. -...+++++|.++|.+.               ...|...+++++|.+.|.++
T Consensus         3 ~~~~~l~~aek~~-~~-~~~~~~-~~~-~~~~~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA   63 (290)
T d1qqea_           3 DPVELLKRAEKKG-VP-SSGFMK-LFS-GSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKA   63 (290)
T ss_dssp             CHHHHHHHHHHHS-SC-CCTHHH-HHS-CCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-Cc-chhHHH-Hhc-CCccccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHH
Confidence            4667777776653 22 222222 221 12233567777776654               56788889999999999988


Q ss_pred             HhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhH
Q 044256           86 VNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTY  165 (363)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (363)
                      .+.....+. .+.-..+|..+..+|.+.|++++|...+++..+.       +...++...+               ..++
T Consensus        64 ~~~~~~~~~-~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~-------~~~~~~~~~~---------------~~~~  120 (290)
T d1qqea_          64 ADYQKKAGN-EDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI-------FTHRGQFRRG---------------ANFK  120 (290)
T ss_dssp             HHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------HHHTTCHHHH---------------HHHH
T ss_pred             HHHHHHcCC-CHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHH-------hhhcccchhH---------------HHHH
Confidence            764211000 1122467888999999999999999999887652       1111222211               3345


Q ss_pred             HHHHHHHH-hcCCHHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcC
Q 044256          166 TPLLNGYC-LVGKVNVAIALFDSMARK----GFMP-DVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCN  239 (363)
Q Consensus       166 ~~li~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  239 (363)
                      ..+...|. ..|+++.|+..++...+.    +.++ -..++..+...+...|++++|...++++.....        ..+
T Consensus       121 ~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~--------~~~  192 (290)
T d1qqea_         121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSM--------GNR  192 (290)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTS--------SCT
T ss_pred             HHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCc--------cch
Confidence            55666664 469999999999877542    2222 134577788899999999999999888765420        000


Q ss_pred             -CCCCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCc-ch---HHHHHHHHHHHHh--cCChHHHHHHHHHhhhC
Q 044256          240 -VVPET-FTCNIFIDGLCKNGHVLEVMELFPTLEISNCE-LF---VEIFNSLIRGCCK--FGIFEIASELFNKLSCK  308 (363)
Q Consensus       240 -~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~--~~~~~~a~~~~~~~~~~  308 (363)
                       ..... ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|...|+++.+.
T Consensus       193 ~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         193 LSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             TTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             hhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence             01111 12334455667889999999999998765311 11   2344566666655  34578888888766543

>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=98.92  E-value=2.4e-08  Score=66.66  Aligned_cols=104  Identities=9%  Similarity=-0.076  Sum_probs=92.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCC
Q 044256          250 FIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQ  329 (363)
Q Consensus       250 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  329 (363)
                      -...+...|++++|+..|+++++.. |.+...|..+..+|...|++++|...+....+.+ +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            4566788999999999999999886 7788999999999999999999999999999875 6689999999999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          330 IKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       330 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      +++|+..|++.++  +.|+...+...+.
T Consensus        87 ~~~A~~~~~~a~~--~~p~~~~~~~~l~  112 (117)
T d1elwa_          87 FEEAKRTYEEGLK--HEANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHHHHHT--TCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            9999999999998  5777666655544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=1.6e-07  Score=68.65  Aligned_cols=145  Identities=10%  Similarity=-0.104  Sum_probs=108.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ..|+. ...+...|+++.|++.|+++.    +|+..+|..+..++...|++++|++.|++.++..       +.+...|.
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-------p~~~~a~~   74 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-------KHLAVAYF   74 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-------hhhhhhHH
Confidence            34554 556788999999999998753    6788889999999999999999999999999965       56688999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCcch-hhhccCChHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHHHH
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDKGINANT-LLCKKTKLVEANRLLELMMQRGLNPV-IFTYTPLLNGYCLVGKVNVAI  182 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~  182 (363)
                      .+..++.+.|++++|+..|++.......... .+...+              ....++ ..++..+..++.+.|++++|.
T Consensus        75 ~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~--------------~~~~~~~~e~~~n~a~~~~~~~~~~~A~  140 (192)
T d1hh8a_          75 QRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILG--------------LQFKLFACEVLYNIAFMYAKKEEWKKAE  140 (192)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGT--------------BCCEEEHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhh--------------hhcccchHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999999999998764211110 000000              000111 234556777899999999999


Q ss_pred             HHHHHHHHcCCCC
Q 044256          183 ALFDSMARKGFMP  195 (363)
Q Consensus       183 ~~~~~~~~~~~~~  195 (363)
                      +.+.........+
T Consensus       141 ~~l~~A~~~~~~~  153 (192)
T d1hh8a_         141 EQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHTTCCSG
T ss_pred             HHHHHHHhcCCCc
Confidence            9999888764444

>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=98.85  E-value=1.5e-07  Score=68.74  Aligned_cols=138  Identities=9%  Similarity=-0.045  Sum_probs=108.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHH
Q 044256          205 NGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNS  284 (363)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  284 (363)
                      ..+...|++++|++.|.++                .+|+..+|..+..+|...|++++|++.|++.++.. +.+...|..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----------------~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~   75 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----------------QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQ   75 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----------------SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----------------CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHH
Confidence            3467789999998776543                24677888899999999999999999999999887 677889999


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCC------------C--Cc-cHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCH
Q 044256          285 LIRGCCKFGIFEIASELFNKLSCKN------------L--VA-DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDV  349 (363)
Q Consensus       285 li~~~~~~~~~~~a~~~~~~~~~~~------------~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  349 (363)
                      +..+|.+.|++++|.+.|++.....            .  .+ ...++..+..++.+.|++++|.+.++...+....|..
T Consensus        76 ~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~  155 (192)
T d1hh8a_          76 RGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRH  155 (192)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcch
Confidence            9999999999999999999986531            0  11 1356667788899999999999999999886555545


Q ss_pred             HHHHHHHHHH
Q 044256          350 DTFNTLMISF  359 (363)
Q Consensus       350 ~~~~~ll~~~  359 (363)
                      ......+..+
T Consensus       156 ~~~~~Al~~~  165 (192)
T d1hh8a_         156 SKIDKAMECV  165 (192)
T ss_dssp             GHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555444443

>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=98.81  E-value=6.1e-08  Score=68.70  Aligned_cols=86  Identities=9%  Similarity=0.049  Sum_probs=77.1

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLK   80 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   80 (363)
                      .|++++|+..|+.+++.  .|.+...|..+..+|...|++++|+..|++.++.. +-+..+|..+..++...|++++|..
T Consensus        23 ~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~eA~~   99 (159)
T d1a17a_          23 AKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALR   99 (159)
T ss_dssp             TTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            47899999999999997  78789999999999999999999999999999874 4456789999999999999999999


Q ss_pred             HHHHHHhcc
Q 044256           81 LHQEMVNGM   89 (363)
Q Consensus        81 ~~~~~~~~~   89 (363)
                      .+++.....
T Consensus       100 ~~~~a~~~~  108 (159)
T d1a17a_         100 DYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHcC
Confidence            999999854

>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=98.78  E-value=4.6e-08  Score=65.45  Aligned_cols=107  Identities=8%  Similarity=-0.047  Sum_probs=87.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcC---ChHHHHHHHHHhhhCCCCcc-HHHHHHHHHH
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFG---IFEIASELFNKLSCKNLVAD-VVAYNILIHA  323 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~  323 (363)
                      ..++..+...+++++|.+.|++....+ +.++.++..+..++.+.+   ++++|..+++++...+..|+ ..+|..+..+
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            456778888999999999999999987 778899999999998755   45579999999988653343 3478888999


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          324 LGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       324 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      |.+.|++++|.+.|+++++  +.|+......+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l~~  113 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQNNQAKELER  113 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCCHHHHHHHH
Confidence            9999999999999999999  5787665555444

>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=98.77  E-value=9.2e-08  Score=70.68  Aligned_cols=99  Identities=12%  Similarity=-0.093  Sum_probs=89.7

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          242 PETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       242 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      |+...+......+.+.|++++|+..|.+++... |.++..|..+..+|.+.|++++|...|++..+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            666777778889999999999999999999886 7788999999999999999999999999999874 44688999999


Q ss_pred             HHHHccCChhHHHHHHHHHHH
Q 044256          322 HALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+|.+.|++++|+..|++.++
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999876

>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=98.75  E-value=1.6e-07  Score=66.50  Aligned_cols=100  Identities=5%  Similarity=-0.096  Sum_probs=87.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHcc
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKE  327 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  327 (363)
                      ......|.+.|++++|+..|+++.+.. |.+...|..+..+|...|++++|...|+++.+.. +-+..+|..+..++...
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            344567889999999999999999887 7788999999999999999999999999999875 55778999999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHH
Q 044256          328 GQIKKENYLLLSMEENGCALDVDT  351 (363)
Q Consensus       328 g~~~~a~~~~~~m~~~g~~p~~~~  351 (363)
                      |++++|...+++....  .|+...
T Consensus        92 g~~~eA~~~~~~a~~~--~p~~~~  113 (159)
T d1a17a_          92 GKFRAALRDYETVVKV--KPHDKD  113 (159)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCHH
T ss_pred             CCHHHHHHHHHHHHHc--CCCCHH
Confidence            9999999999999984  455433

>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=98.73  E-value=9.8e-08  Score=70.54  Aligned_cols=100  Identities=7%  Similarity=-0.116  Sum_probs=88.1

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCch
Q 044256           21 PLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNV  100 (363)
Q Consensus        21 p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  100 (363)
                      | ++..+......+.+.|++++|+..|++.+... +.+...|..+..+|.+.|++++|+..|+..++..       +-+.
T Consensus         2 ~-~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-------p~~~   72 (201)
T d2c2la1           2 P-SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-------GQSV   72 (201)
T ss_dssp             C-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-------TTCH
T ss_pred             h-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-------CCcH
Confidence            5 77888889999999999999999999998875 4567789999999999999999999999999853       4467


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          101 FCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       101 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .+|..+..+|.+.|++++|+..|++..+.
T Consensus        73 ~a~~~lg~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          73 KAHFFLGQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            88999999999999999999999988763

>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=98.71  E-value=2.2e-05  Score=60.23  Aligned_cols=225  Identities=11%  Similarity=-0.036  Sum_probs=134.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh----cCChhHHHHHHHHHHhccCCCCCccCC
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR----TGNMNLTLKLHQEMVNGMGDFGGIYKP   98 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   98 (363)
                      ||..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...++.....+         
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---------   68 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   68 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---------
Confidence            56788888888899999999999999998865   55666667777765    557888888888877644         


Q ss_pred             chhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHH-
Q 044256           99 NVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYC-  173 (363)
Q Consensus        99 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-  173 (363)
                      +......+...+..    ..+.+.|...++...+.+...                              ....+...+. 
T Consensus        69 ~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~------------------------------a~~~l~~~~~~  118 (265)
T d1ouva_          69 YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE------------------------------GCASLGGIYHD  118 (265)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH------------------------------HHHHHHHHHHH
T ss_pred             ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhh------------------------------HHHhhcccccC
Confidence            23333444333332    455667777776665543211                              1111111221 


Q ss_pred             ---hcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHH
Q 044256          174 ---LVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK----NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFT  246 (363)
Q Consensus       174 ---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (363)
                         .......+...+......   .+...+..+...|..    ..+...+...++...+.               .+...
T Consensus       119 ~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~---------------g~~~A  180 (265)
T d1ouva_         119 GKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL---------------KDSPG  180 (265)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT---------------TCHHH
T ss_pred             CCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccc---------------ccccc
Confidence               133455555555555443   244455555555543    34445555555555443               23334


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh----cCChHHHHHHHHHhhhCCC
Q 044256          247 CNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK----FGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       247 ~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~  310 (363)
                      ...+...|..    ..++++|+..|++..+.|   ++..+..|...|..    ..+.++|.+.|++....|.
T Consensus       181 ~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         181 CFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            4444444443    457778888888877766   23455556666654    3367778888887777663

>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=98.65  E-value=2e-07  Score=61.46  Aligned_cols=91  Identities=13%  Similarity=-0.076  Sum_probs=82.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccC
Q 044256          249 IFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEG  328 (363)
Q Consensus       249 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  328 (363)
                      .+...+.+.|++++|+..|++.+... |-++.+|..+..++.+.|++++|...|++..+.. +.+...|..+..+|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            45667889999999999999999876 6678999999999999999999999999999875 557899999999999999


Q ss_pred             ChhHHHHHHHHHH
Q 044256          329 QIKKENYLLLSME  341 (363)
Q Consensus       329 ~~~~a~~~~~~m~  341 (363)
                      ++++|++.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999999864

>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=98.65  E-value=1.3e-07  Score=62.29  Aligned_cols=94  Identities=5%  Similarity=-0.109  Sum_probs=81.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHH
Q 044256           26 TFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGS  105 (363)
Q Consensus        26 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (363)
                      .+..+...+.+.|++++|+..|++.++.. +-+..+|..+..++.+.|++++|+..|+...+..       +.+..+|..
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-------p~~~~a~~~   89 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-------PKDIAVHAA   89 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-------cccccchHH
Confidence            34456777899999999999999999874 3367789999999999999999999999999865       567889999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 044256          106 LIDGLCKDRLVDQTKDLFMEMK  127 (363)
Q Consensus       106 ll~~~~~~~~~~~a~~~~~~~~  127 (363)
                      +..+|...|++++|++.+++.+
T Consensus        90 la~~y~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          90 LAVSHTNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHh
Confidence            9999999999999999998864

>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=98.55  E-value=7.1e-05  Score=57.32  Aligned_cols=226  Identities=9%  Similarity=-0.090  Sum_probs=144.0

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCcc
Q 044256           59 VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCK----DRLVDQTKDLFMEMKDKGINAN  134 (363)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  134 (363)
                      +..+..|...+.+.+++++|++.|++..+.+         +...+..|...|..    ..+...|...+....+      
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---------~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~------   66 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---------ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD------   66 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---------CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccc------
Confidence            4456666677777888888888888887644         34445455555544    3455555555555443      


Q ss_pred             hhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh-
Q 044256          135 TLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL----VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCK-  209 (363)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  209 (363)
                                           .+   +......+...+..    ..+.+.|...++...+.|..   .....+...+.. 
T Consensus        67 ---------------------~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~  119 (265)
T d1ouva_          67 ---------------------LN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDG  119 (265)
T ss_dssp             ---------------------TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHC
T ss_pred             ---------------------cc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCC
Confidence                                 32   22233333333332    46788899999988877632   223333333332 


Q ss_pred             ---cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCcchHHHH
Q 044256          210 ---NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCK----NGHVLEVMELFPTLEISNCELFVEIF  282 (363)
Q Consensus       210 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  282 (363)
                         ......+...+.....               ..+...+..+...+..    ..+...+...++...+.+   +..+.
T Consensus       120 ~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~  181 (265)
T d1ouva_         120 KVVTRDFKKAVEYFTKACD---------------LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGC  181 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHH---------------TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CcccchhHHHHHHhhhhhc---------------ccccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccc
Confidence               3345555555444333               2455667777777765    456778888888887765   44555


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCC
Q 044256          283 NSLIRGCCK----FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENGCAL  347 (363)
Q Consensus       283 ~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p  347 (363)
                      ..+...|..    ..++++|...|++..+.|   ++..+..|...|.+    ..++++|.++|++..+.|..+
T Consensus       182 ~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         182 FNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             cchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            556655654    568999999999999887   56677777777765    448999999999999888654

>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=98.46  E-value=7.8e-07  Score=59.28  Aligned_cols=86  Identities=15%  Similarity=0.071  Sum_probs=72.1

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhH
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGN---IRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNL   77 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~   77 (363)
                      +++++|.+.|+..+..  .|.++.++..+..++.+.++   +++|+.+|+++......|+ ..+|..+..+|.+.|++++
T Consensus        13 ~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~   90 (122)
T d1nzna_          13 EDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   90 (122)
T ss_dssp             HHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhhHH
Confidence            5789999999999997  77789999999999987554   5579999999987643333 2467889999999999999


Q ss_pred             HHHHHHHHHhcc
Q 044256           78 TLKLHQEMVNGM   89 (363)
Q Consensus        78 a~~~~~~~~~~~   89 (363)
                      |++.|+++.+..
T Consensus        91 A~~~~~~aL~~~  102 (122)
T d1nzna_          91 ALKYVRGLLQTE  102 (122)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999999943

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=1.9e-07  Score=79.21  Aligned_cols=229  Identities=9%  Similarity=-0.086  Sum_probs=118.9

Q ss_pred             hHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-ccHHHHHHHHHhcCChhHHHHHHHH
Q 044256            6 GALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV-TTCDTLITGLRRTGNMNLTLKLHQE   84 (363)
Q Consensus         6 ~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~   84 (363)
                      +|.+.|+++.+.  .|..+.++..+..++...|++++|   |++++..  .|+. ..++... .+. ...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~-~Lw-~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQ-DLW-NHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHH-HHH-HHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHH-HHH-HHHHHHHHHHHHH
Confidence            688889988875  775677788888888888888876   7777654  2321 1111111 111 1124456666666


Q ss_pred             HHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhh
Q 044256           85 MVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFT  164 (363)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  164 (363)
                      ..+..      ..++..-....+..+     +..|...|+.+..                    .+....+.. +++...
T Consensus        75 ~~k~~------~~~~~~~~~~~~~~~-----l~~a~~~Y~~ai~--------------------~l~~~~~l~-~~~~~~  122 (497)
T d1ya0a1          75 QAKNR------ANPNRSEVQANLSLF-----LEAASGFYTQLLQ--------------------ELCTVFNVD-LPCRVK  122 (497)
T ss_dssp             HHSCS------SCTTTTHHHHHHHHH-----HHHHHHHHHHHHH--------------------HHTC------------
T ss_pred             hcccc------cCccHHHHHHHHHHH-----HHHHHHHHHHHHH--------------------HHHHHHCCC-hhhHHH
Confidence            65533      223322222221111     2233333333321                    111111111 234455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCCh
Q 044256          165 YTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPET  244 (363)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (363)
                      +..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...+++.....             +.+.
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-------------P~~~  186 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-------------PSNG  186 (497)
T ss_dssp             --------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------TTBS
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-------------CCch
Confidence            6666777777788888877776554431   23456667777888888888888888877654             2345


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhc
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKF  292 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  292 (363)
                      ..|+.+...+...|+..+|...|.+..... +|.+.++..|...+.+.
T Consensus       187 ~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         187 QPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            788888888888888888888888888766 66777777777776544

>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=98.42  E-value=1.1e-06  Score=59.38  Aligned_cols=104  Identities=11%  Similarity=0.073  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHH
Q 044256           25 VTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYG  104 (363)
Q Consensus        25 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (363)
                      ..+..+...+.+.|++++|+..|++.++.+ +.+...|..+..+|.+.|++++|+..++.+++..+........-..+|.
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            456678889999999999999999999885 4567788999999999999999999999998854110000000023555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256          105 SLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus       105 ~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .+...+...+++++|+..|++....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            6666777778888888888877654

>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=98.40  E-value=4e-06  Score=56.50  Aligned_cols=106  Identities=10%  Similarity=-0.010  Sum_probs=85.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC---C--cc-HHHHHHH
Q 044256          247 CNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL---V--AD-VVAYNIL  320 (363)
Q Consensus       247 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~--~~-~~~~~~l  320 (363)
                      +..+...+...|++++|+..|.+.++.+ |.+..++..+..+|.+.|++++|.+.++++++...   .  +. ..+|..+
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            4456778899999999999999999886 67789999999999999999999999999876420   1  01 2467777


Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 044256          321 IHALGKEGQIKKENYLLLSMEENGCALDVDTFNTL  355 (363)
Q Consensus       321 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  355 (363)
                      ...+...+++++|++.|++.+..  .|+......+
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  118 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc--CCCHHHHHHH
Confidence            88888999999999999998874  4555444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.36  E-value=6.2e-07  Score=76.02  Aligned_cols=222  Identities=9%  Similarity=-0.113  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchh-----hhccCChHHHHHHHH
Q 044256           77 LTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTL-----LCKKTKLVEANRLLE  151 (363)
Q Consensus        77 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~~~~~a~~~~~  151 (363)
                      +|.+.|++..+..       +.....+..+..++...+++++|   |++++..++.-...     ..-...+..+.+.++
T Consensus         4 eA~q~~~qA~~l~-------p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e~~Lw~~~y~~~ie~~r   73 (497)
T d1ya0a1           4 QSAQYLRQAEVLK-------ADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVEQDLWNHAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHHH-------GGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-------CCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhHHHHHHHHHHHHHHHHHH
Confidence            5677777777633       22245555666666666666655   55555432211000     000112234445555


Q ss_pred             HHHHcCCCCchhhHHHHHHHH--HhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHH
Q 044256          152 LMMQRGLNPVIFTYTPLLNGY--CLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFK  229 (363)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (363)
                      ...+....++..-....+..+  ...+.++.++..+....+.. +++...+..+...+.+.|+.++|...+.......  
T Consensus        74 ~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--  150 (497)
T d1ya0a1          74 GQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--  150 (497)
T ss_dssp             HHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH--
T ss_pred             HhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--
Confidence            554443333332222222121  12344445544444333221 2345566777777888899999887766654432  


Q ss_pred             HHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          230 KIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                                  | ..++..+...+...|++++|...|++..+.. |-+...|+.|...+...|+..+|...|.+.....
T Consensus       151 ------------~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~  216 (497)
T d1ya0a1         151 ------------C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK  216 (497)
T ss_dssp             ------------H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS
T ss_pred             ------------H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence                        1 2467778889999999999999999999886 7778999999999999999999999999988765


Q ss_pred             CCccHHHHHHHHHHHHc
Q 044256          310 LVADVVAYNILIHALGK  326 (363)
Q Consensus       310 ~~~~~~~~~~li~~~~~  326 (363)
                       +|...++..|...+.+
T Consensus       217 -~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         217 -FPFPAASTNLQKALSK  232 (497)
T ss_dssp             -BCCHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHH
Confidence             5677777777766654

>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=98.36  E-value=6.2e-06  Score=58.64  Aligned_cols=108  Identities=11%  Similarity=-0.080  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccC--------------cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNC--------------ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV  311 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  311 (363)
                      .+......+.+.|++++|+..|.+.+..--              .....+|+.+..+|.+.|++++|...++..+..+ |
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p   93 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S   93 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-c
Confidence            344556678899999999999998875410              0123456778888999999999999999999875 5


Q ss_pred             ccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044256          312 ADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLM  356 (363)
Q Consensus       312 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  356 (363)
                      .++..|..+..++...|++++|+..|++.++  +.|+.......+
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~l  136 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQL  136 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHH
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            5889999999999999999999999999998  566544444333

>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=98.36  E-value=8.8e-06  Score=56.67  Aligned_cols=111  Identities=11%  Similarity=-0.108  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccC---------------cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEISNC---------------ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNL  310 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  310 (363)
                      .+..-...+.+.|++.+|+..|.++...-.               .....+|..+..+|.+.|++++|++.++.+.+.+ 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            344455667789999999999998875310               0123467778899999999999999999999875 


Q ss_pred             CccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044256          311 VADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMISF  359 (363)
Q Consensus       311 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  359 (363)
                      +.+..+|..+..++...|++++|+..|++.++  +.|+.......+..+
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  144 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYELC  144 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            56889999999999999999999999999998  567766555544433

>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=98.36  E-value=1.9e-05  Score=56.02  Aligned_cols=82  Identities=11%  Similarity=-0.126  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+|+.+..+|.+.|++++|+..++..+... |.++.++..+..+|...|++++|...|+++.+.. |-|......+-.+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            357778889999999999999999999886 6788999999999999999999999999999874 33566655555544


Q ss_pred             HccC
Q 044256          325 GKEG  328 (363)
Q Consensus       325 ~~~g  328 (363)
                      .+.+
T Consensus       141 ~~~~  144 (170)
T d1p5qa1         141 QRIR  144 (170)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4333

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.35  E-value=3e-06  Score=58.46  Aligned_cols=112  Identities=12%  Similarity=0.064  Sum_probs=85.4

Q ss_pred             hhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHh
Q 044256            2 SKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCME----------GNIRDASQLVKKMATFGCRPNVTTCDTLITGLRR   71 (363)
Q Consensus         2 g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~   71 (363)
                      +.+++|++.|+...+.  .|.++.++..+..++...          +.+++|+..|++.++.. +.+..+|..+..+|..
T Consensus        11 ~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHHH
Confidence            5789999999999997  888999999999988754          45678999999999875 4466788888888876


Q ss_pred             cC-----------ChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           72 TG-----------NMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        72 ~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      .|           .++.|.+.|+...+        +.|+...|..-+..+      ..|.+++.+..+.|
T Consensus        88 ~g~~~~~~~~~~~~~~~A~~~~~kal~--------l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          88 FAFLTPDETEAKHNFDLATQFFQQAVD--------EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--------HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             cccchhhHHHHHHhHHHhhhhhhcccc--------cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            54           36788899999888        567766666555444      35566666666544

>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=98.24  E-value=2.7e-05  Score=55.58  Aligned_cols=101  Identities=8%  Similarity=-0.124  Sum_probs=83.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc--cC-cc------------------hHHHHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 044256          251 IDGLCKNGHVLEVMELFPTLEIS--NC-EL------------------FVEIFNSLIRGCCKFGIFEIASELFNKLSCKN  309 (363)
Q Consensus       251 l~~~~~~~~~~~a~~~~~~~~~~--~~-~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  309 (363)
                      .......|++++|.+.|......  |. -+                  ....+..+...+...|++++|...++++....
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~   97 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH   97 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC
Confidence            34667889999999999998764  11 01                  12456778889999999999999999999875


Q ss_pred             CCccHHHHHHHHHHHHccCChhHHHHHHHHHHH-----cCCCCCHHHH
Q 044256          310 LVADVVAYNILIHALGKEGQIKKENYLLLSMEE-----NGCALDVDTF  352 (363)
Q Consensus       310 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~  352 (363)
                       +-+...|..++.++.+.|++++|++.|+++.+     .|+.|+..+-
T Consensus        98 -P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          98 -PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             -TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             -CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence             66899999999999999999999999999854     5999998663

>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=98.23  E-value=2e-05  Score=55.84  Aligned_cols=101  Identities=7%  Similarity=-0.106  Sum_probs=80.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcc--------------C-cchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCc
Q 044256          248 NIFIDGLCKNGHVLEVMELFPTLEISN--------------C-ELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVA  312 (363)
Q Consensus       248 ~~ll~~~~~~~~~~~a~~~~~~~~~~~--------------~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  312 (363)
                      ......+...|++++|+..|.++++..              + +.....|..+..++.+.|++++|+..++++++.. +.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~  109 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PS  109 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hh
Confidence            344556678899999988888765320              1 2345567778889999999999999999999875 56


Q ss_pred             cHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHH
Q 044256          313 DVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDT  351 (363)
Q Consensus       313 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  351 (363)
                      +...|..+..++.+.|++++|+..|++.++  +.|+...
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~n~~  146 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKA  146 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCCCHH
Confidence            889999999999999999999999999999  4565443

>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=98.21  E-value=2.3e-05  Score=55.55  Aligned_cols=81  Identities=7%  Similarity=-0.138  Sum_probs=67.3

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHH
Q 044256          243 ETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIH  322 (363)
Q Consensus       243 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  322 (363)
                      ....+..+..++.+.|++++|+..+..+++.. |.++.+|..+..++...|++++|...|+.+.+.. +.+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34567778889999999999999999999886 7788999999999999999999999999999874 346666665555


Q ss_pred             HHH
Q 044256          323 ALG  325 (363)
Q Consensus       323 ~~~  325 (363)
                      +..
T Consensus       154 ~~~  156 (169)
T d1ihga1         154 VKQ  156 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.17  E-value=8.5e-05  Score=52.41  Aligned_cols=95  Identities=12%  Similarity=-0.090  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHH
Q 044256          245 FTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHAL  324 (363)
Q Consensus       245 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  324 (363)
                      .+|+.+..+|.+.|++++|+..++...... |.+..+|..+..++...|++++|...|+++.... |.+......+-...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            356677888999999999999999999876 7788999999999999999999999999999875 44666666555554


Q ss_pred             HccCChh-HHHHHHHHHH
Q 044256          325 GKEGQIK-KENYLLLSME  341 (363)
Q Consensus       325 ~~~g~~~-~a~~~~~~m~  341 (363)
                      .+.+... ...+++..|.
T Consensus       143 ~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         143 KKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            4444333 3444555444

>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=98.16  E-value=3e-05  Score=54.87  Aligned_cols=109  Identities=10%  Similarity=-0.036  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc---cCc-----------chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC
Q 044256          246 TCNIFIDGLCKNGHVLEVMELFPTLEIS---NCE-----------LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV  311 (363)
Q Consensus       246 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~-----------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  311 (363)
                      .+.-....+.+.|++.+|...|++.+..   ...           ....+|+.+..+|.+.|++++|+..++...... +
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-c
Confidence            4555667788999999999999887642   000           122346667888999999999999999999875 6


Q ss_pred             ccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          312 ADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       312 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      .+...|..+..++...|++++|...|+++++  +.|+.......+.
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~  139 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIF  139 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            6899999999999999999999999999998  5676655444443

>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=98.14  E-value=1.8e-06  Score=66.05  Aligned_cols=120  Identities=12%  Similarity=0.150  Sum_probs=82.8

Q ss_pred             ChhhhhHHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-ccHHHHHHHHHhcCChhHHH
Q 044256            1 TSKVLGALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNV-TTCDTLITGLRRTGNMNLTL   79 (363)
Q Consensus         1 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~   79 (363)
                      .|++++|+..++..++.  .|.++..+..+...++..|++++|...|+...+.  .|+. ..+..+...+...+.     
T Consensus         9 ~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~-----   79 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQA-----   79 (264)
T ss_dssp             TTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHH-----
T ss_pred             CCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccc-----
Confidence            48999999999999997  8889999999999999999999999999999887  4543 334333333332222     


Q ss_pred             HHHHHHHhccCCCCCc-cCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 044256           80 KLHQEMVNGMGDFGGI-YKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGI  131 (363)
Q Consensus        80 ~~~~~~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  131 (363)
                        ..++.......... .+++...+......+...|+.++|.+.++++.+...
T Consensus        80 --~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          80 --RKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             --HHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             --cHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence              22222211000000 122333444556678889999999999999887643

>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=98.12  E-value=4.2e-05  Score=53.06  Aligned_cols=100  Identities=12%  Similarity=0.042  Sum_probs=80.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCC-----------cccHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 044256           24 DVTFNSLIKGFCMEGNIRDASQLVKKMATFGC----RPN-----------VTTCDTLITGLRRTGNMNLTLKLHQEMVNG   88 (363)
Q Consensus        24 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   88 (363)
                      ...+..-...+.+.|++.+|+..|.+.+..-.    .++           ..+|+.+..+|.+.|++++|++.++.+++.
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~   96 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI   96 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc
Confidence            34566667778899999999999999876411    111           124566888889999999999999999986


Q ss_pred             cCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           89 MGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        89 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      .       |.+..+|..+..++...|++++|...|++..+..
T Consensus        97 ~-------p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          97 D-------KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             S-------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             c-------chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            5       5678899999999999999999999999988753

>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=98.08  E-value=5.4e-05  Score=53.95  Aligned_cols=95  Identities=9%  Similarity=-0.006  Sum_probs=75.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc--CCC-CC------------------cccHHHHHHHHHhcCChhHHHHHHHHH
Q 044256           27 FNSLIKGFCMEGNIRDASQLVKKMATF--GCR-PN------------------VTTCDTLITGLRRTGNMNLTLKLHQEM   85 (363)
Q Consensus        27 ~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~-~~------------------~~~~~~l~~~~~~~~~~~~a~~~~~~~   85 (363)
                      ...........|++++|.+.|.+.+..  |.. ++                  ...+..+..++...|++++|+..++.+
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~a   93 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEAL   93 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHH
Confidence            334445677889999999998888764  210 11                  124566788889999999999999999


Q ss_pred             HhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 044256           86 VNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKD  128 (363)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  128 (363)
                      .+..       +-+...|..++.++.+.|+.++|++.|+++.+
T Consensus        94 l~~~-------P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          94 TFEH-------PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHS-------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHhC-------CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9975       67889999999999999999999999999864

>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=98.07  E-value=8.3e-06  Score=62.26  Aligned_cols=123  Identities=11%  Similarity=-0.024  Sum_probs=86.5

Q ss_pred             HHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHH
Q 044256          207 YCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLI  286 (363)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  286 (363)
                      ..+.|++++|+..+++.++..             +.+...+..+...++..|++++|.+.++...+.. +-+...+..+.
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-------------P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~   71 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-------------PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLR   71 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            456799999999999988775             3567889999999999999999999999998875 44455555555


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHc
Q 044256          287 RGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEEN  343 (363)
Q Consensus       287 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  343 (363)
                      ..+...+..+++..-.......+-+++...+......+...|+.++|.+.++++.+.
T Consensus        72 ~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          72 HLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            555444433333222221111222333444555566788899999999999998874

>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=97.97  E-value=1.4e-05  Score=54.94  Aligned_cols=123  Identities=10%  Similarity=-0.036  Sum_probs=80.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhc----------CChhHHHHHHHHHHhccCCCCCccCCchhhH
Q 044256           34 FCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRT----------GNMNLTLKLHQEMVNGMGDFGGIYKPNVFCY  103 (363)
Q Consensus        34 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  103 (363)
                      |-+.+.+++|+..|+...+.. +.+..++..+..++...          +.+++|+..|++.++..       |.+..+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-------P~~~~a~   78 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-------PKKDEAV   78 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-------TTCHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-------chhhHHH
Confidence            456677999999999999875 45667788887777643          45678999999999865       5668889


Q ss_pred             HHHHHHHHhcCCH----HHHHHHHHHHHHcCCCcchhhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 044256          104 GSLIDGLCKDRLV----DQTKDLFMEMKDKGINANTLLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVN  179 (363)
Q Consensus       104 ~~ll~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (363)
                      ..+..+|...|++    ..+.                    +.+++|.+.|++.++.  .|+...|..-+..+      .
T Consensus        79 ~~lG~~y~~~g~~~~~~~~~~--------------------~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~  130 (145)
T d1zu2a1          79 WCIGNAYTSFAFLTPDETEAK--------------------HNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------A  130 (145)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHH--------------------HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------H
T ss_pred             hhHHHHHHHcccchhhHHHHH--------------------HhHHHhhhhhhccccc--CCCHHHHHHHHHHH------H
Confidence            9888888765432    1111                    1234455555555554  45555554444433      3


Q ss_pred             HHHHHHHHHHHcC
Q 044256          180 VAIALFDSMARKG  192 (363)
Q Consensus       180 ~a~~~~~~~~~~~  192 (363)
                      .|.+++.+..+.|
T Consensus       131 ka~~~~~e~~k~~  143 (145)
T d1zu2a1         131 KAPQLHAEAYKQG  143 (145)
T ss_dssp             THHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHh
Confidence            4556666655544

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.94  E-value=0.0025  Score=49.91  Aligned_cols=270  Identities=10%  Similarity=0.016  Sum_probs=141.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhh
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFC  102 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  102 (363)
                      |..--..+++.|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+.+...-            +..+
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------------~~~~   71 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------------STRT   71 (336)
T ss_dssp             ----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------------CHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------------CHHH
Confidence            55555667777778888888888887544         25667777788888888777665332            3557


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC--Ccch------hhhccCChHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 044256          103 YGSLIDGLCKDRLVDQTKDLFMEMKDKGI--NANT------LLCKKTKLVEANRLLELMMQRGLNPVIFTYTPLLNGYCL  174 (363)
Q Consensus       103 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (363)
                      |..+..++.+......+.-     .....  .|+.      .+...|.+++...+++...... .++...++.++..|++
T Consensus        72 ~k~~~~~l~~~~e~~la~i-----~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak  145 (336)
T d1b89a_          72 WKEVCFACVDGKEFRLAQM-----CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  145 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-----TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCcHHHHHHH-----HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHH
Confidence            7777777776665543311     11111  1111      4556677777888887765432 4566678889998888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHH
Q 044256          175 VGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGL  254 (363)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~  254 (363)
                      .+. ++..+.+...  .    +......++..|.+.+-+.++.-++.++-...  .....|..+  .++..-...++..+
T Consensus       146 ~~~-~kl~e~l~~~--s----~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~--~A~~~~i~~--~~~~~~~~~f~e~~  214 (336)
T d1b89a_         146 FKP-QKMREHLELF--W----SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYD--NAIITMMNH--PTDAWKEGQFKDII  214 (336)
T ss_dssp             TCH-HHHHHHHHHH--S----TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHH--HHHHHHHHS--TTTTCCHHHHHHHH
T ss_pred             hCh-HHHHHHHHhc--c----ccCCHHHHHHHHHHcCChHHHHHHHHhcCCHH--HHHHHHHHc--chhhhhHHHHHHHH
Confidence            653 3333333322  1    11223334445555555555554444432221  111122221  23333344456666


Q ss_pred             HhcCCHHHHHHHHHHHHhccCcchHHHHHH-------------HHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHH
Q 044256          255 CKNGHVLEVMELFPTLEISNCELFVEIFNS-------------LIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILI  321 (363)
Q Consensus       255 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  321 (363)
                      .+..+++...++.....+.  .|+  ..+.             ++..+.+.+++......++.....+   +....+++.
T Consensus       215 ~k~~N~e~~~~~i~~yL~~--~p~--~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~  287 (336)
T d1b89a_         215 TKVANVELYYRAIQFYLEF--KPL--LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLN  287 (336)
T ss_dssp             HHCSSTHHHHHHHHHHHHH--CGG--GHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHH
T ss_pred             HccCChHHHHHHHHHHHHc--CHH--HHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHH
Confidence            7777776666665555442  222  2233             4444455556666666666655544   457888899


Q ss_pred             HHHHccCChhHHHHHH
Q 044256          322 HALGKEGQIKKENYLL  337 (363)
Q Consensus       322 ~~~~~~g~~~~a~~~~  337 (363)
                      ..|...++++.-.+..
T Consensus       288 ~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         288 NLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHhCcchhHHHHHHH
Confidence            9999999876544433

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.73  E-value=0.0058  Score=47.76  Aligned_cols=130  Identities=11%  Similarity=-0.029  Sum_probs=72.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCC
Q 044256          164 TYTPLLNGYCLVGKVNVAIALFDSMARKGFMPDVFSYSVLINGYCKNFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPE  243 (363)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (363)
                      .|.-++-.|.+.|+++.|..+.   .++  +++..-....+..+.+..+.+...+++...+...+.-+-+-+...+...|
T Consensus       176 l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~~p~~i~~lL~~v~~~~d  250 (336)
T d1b89a_         176 LWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLD  250 (336)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHCGGGHHHHHHHHGGGCC
T ss_pred             ChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHcCHHHHHHHHHHhccCCC
Confidence            3555666677777777766543   333  34444455566677777777777666655444321111111111111111


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHH
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNK  304 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  304 (363)
                         -.-++..+.+.+++.-....++.....+   +..+.++|...|...++++.-....+.
T Consensus       251 ---~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i~~  305 (336)
T d1b89a_         251 ---HTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSIDA  305 (336)
T ss_dssp             ---HHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence               1234445555666666666666655444   346888999999999987665555544

>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=97.63  E-value=0.00026  Score=49.13  Aligned_cols=105  Identities=10%  Similarity=0.026  Sum_probs=76.0

Q ss_pred             hhhHHHH--HHHHHhcCCHHHHHHHHHHHHhcCC-CCC----------cccHHHHHHHHHhcCChhHHHHHHHHHHhccC
Q 044256           24 DVTFNSL--IKGFCMEGNIRDASQLVKKMATFGC-RPN----------VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMG   90 (363)
Q Consensus        24 ~~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~~~-~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   90 (363)
                      ..+|..+  ...+.+.|++++|+..|++.++... .|+          ...|+.+..+|...|++++|...+++......
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            4566666  5556778999999999999886421 122          24678889999999999999999998875321


Q ss_pred             CCCCccCC-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 044256           91 DFGGIYKP-----NVFCYGSLIDGLCKDRLVDQTKDLFMEMKDK  129 (363)
Q Consensus        91 ~~~~~~~~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  129 (363)
                      .... ..+     ....++.+..+|...|++++|+..|++..+.
T Consensus        87 ~~~~-~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          87 RRGE-LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHCC-TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccc-ccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            0000 011     1235777889999999999999999998753

>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=97.62  E-value=0.00076  Score=46.61  Aligned_cols=97  Identities=13%  Similarity=-0.071  Sum_probs=73.9

Q ss_pred             HHHHH--HHHHHhcCCHHHHHHHHHHHHhccC-cc----------hHHHHHHHHHHHHhcCChHHHHHHHHHhhhC----
Q 044256          246 TCNIF--IDGLCKNGHVLEVMELFPTLEISNC-EL----------FVEIFNSLIRGCCKFGIFEIASELFNKLSCK----  308 (363)
Q Consensus       246 ~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~-~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----  308 (363)
                      +|..+  ...+...|++++|+..|++.++..- .|          ....|+.+..+|...|++++|...+++....    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45555  4556678999999999999986421 11          2467889999999999999999999987642    


Q ss_pred             -CCCcc-----HHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          309 -NLVAD-----VVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       309 -~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                       ...++     ...|+.+..+|...|++++|+..|++.++
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             11111     23567788899999999999999999775

>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=97.60  E-value=0.00019  Score=44.98  Aligned_cols=72  Identities=8%  Similarity=-0.093  Sum_probs=53.2

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 044256           59 VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKG  130 (363)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  130 (363)
                      ...+-.+...+.+.|+++.|...|++..+..............+++.+..++.+.|++++|+..++++++..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            334456777788888888888888887765422211112235678999999999999999999999998864

>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=97.51  E-value=0.00028  Score=44.10  Aligned_cols=77  Identities=14%  Similarity=0.085  Sum_probs=60.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-----CCCC-cccHHHHHHHHHhcCChhHHHHHHHHHHhccCCCCCcc
Q 044256           23 NDVTFNSLIKGFCMEGNIRDASQLVKKMATFG-----CRPN-VTTCDTLITGLRRTGNMNLTLKLHQEMVNGMGDFGGIY   96 (363)
Q Consensus        23 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   96 (363)
                      ++..+..+...+.+.|++++|+..|++.++..     ..++ ..+++.+..++.+.|++++|+..++++++..       
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-------   76 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-------   76 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-------
Confidence            56677789999999999999999999987641     1111 3468889999999999999999999999954       


Q ss_pred             CCchhhHHHH
Q 044256           97 KPNVFCYGSL  106 (363)
Q Consensus        97 ~~~~~~~~~l  106 (363)
                      |.+..+++.+
T Consensus        77 P~~~~a~~Nl   86 (95)
T d1tjca_          77 PEHQRANGNL   86 (95)
T ss_dssp             TTCHHHHHHH
T ss_pred             cCCHHHHHHH
Confidence            3345555554

>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=97.02  E-value=0.018  Score=38.04  Aligned_cols=111  Identities=13%  Similarity=-0.042  Sum_probs=76.7

Q ss_pred             ChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh
Q 044256          212 NVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK  291 (363)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  291 (363)
                      ++++|+..|++..+.+               +......+.  .....+.++|+..+++..+.|   ++.....|...|..
T Consensus         8 d~~~A~~~~~kaa~~g---------------~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~   67 (133)
T d1klxa_           8 DLKKAIQYYVKACELN---------------EMFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYEN   67 (133)
T ss_dssp             HHHHHHHHHHHHHHTT---------------CTTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCC---------------Chhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhh
Confidence            5667777776665443               222222232  234567899999999998887   34455556666654


Q ss_pred             ----cCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHc----cCChhHHHHHHHHHHHcCC
Q 044256          292 ----FGIFEIASELFNKLSCKNLVADVVAYNILIHALGK----EGQIKKENYLLLSMEENGC  345 (363)
Q Consensus       292 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  345 (363)
                          ..+.++|.++|++..+.|   ++.....|...|..    ..+.++|.++|++..+.|.
T Consensus        68 g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          68 GKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence                467899999999999887   45555666666654    4689999999999988774

>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=96.91  E-value=0.02  Score=36.56  Aligned_cols=67  Identities=18%  Similarity=0.076  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCC
Q 044256          244 TFTCNIFIDGLCKNGHVLEVMELFPTLEISNCELFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLV  311 (363)
Q Consensus       244 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  311 (363)
                      ...+...++....+|+-++-.++++.+.+.+ .+++.....+..+|.+.|+..++-+++.++-+.|++
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            3345556677777777777777877766655 666777777778888888888888888777777643

>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=96.69  E-value=0.036  Score=36.49  Aligned_cols=49  Identities=10%  Similarity=-0.093  Sum_probs=29.2

Q ss_pred             CCHHHHHHHHHHHHhccCcchHHHHHHHHHHHHh----cCChHHHHHHHHHhhhCC
Q 044256          258 GHVLEVMELFPTLEISNCELFVEIFNSLIRGCCK----FGIFEIASELFNKLSCKN  309 (363)
Q Consensus       258 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~  309 (363)
                      .+.++|.++|++..+.+ .  +.....|...|..    ..+.++|.++|++..+.|
T Consensus        73 ~d~~~A~~~~~~aa~~g-~--~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN-D--QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT-C--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHHhhhhccC-c--chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            45667777777776665 2  2333444444443    346777777777776665

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.94  E-value=0.086  Score=33.79  Aligned_cols=76  Identities=9%  Similarity=-0.018  Sum_probs=45.6

Q ss_pred             chHHHHHHHHHHHHhcC---ChHHHHHHHHHhhhCCCCccH-HHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHH
Q 044256          277 LFVEIFNSLIRGCCKFG---IFEIASELFNKLSCKNLVADV-VAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTF  352 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  352 (363)
                      ++..+-.....++++..   +.++++.+++++.+.+ +.+. ..+..+..+|.+.|++++|.+.++.+++  +.|+..--
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcHHH
Confidence            34445455555555443   4566777777776543 2232 4556666677777777777777777777  45665443


Q ss_pred             HHH
Q 044256          353 NTL  355 (363)
Q Consensus       353 ~~l  355 (363)
                      ..|
T Consensus       110 ~~L  112 (124)
T d2pqrb1         110 GAL  112 (124)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=95.93  E-value=0.073  Score=32.09  Aligned_cols=63  Identities=10%  Similarity=0.051  Sum_probs=35.4

Q ss_pred             ChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044256          294 IFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCALDVDTFNTLMI  357 (363)
Q Consensus       294 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  357 (363)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+-...+ +.++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            44455555555555666666666666666666666666666666655543 2233344444443

>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=94.67  E-value=0.046  Score=35.08  Aligned_cols=69  Identities=7%  Similarity=0.021  Sum_probs=53.5

Q ss_pred             CCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCC-cccHHHHHHHHHhcCChhHHHHHHHHHHhcc
Q 044256           19 YRPLNDVTFNSLIKGFCMEG---NIRDASQLVKKMATFGCRPN-VTTCDTLITGLRRTGNMNLTLKLHQEMVNGM   89 (363)
Q Consensus        19 ~~p~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   89 (363)
                      ..| ++.+-....-++++..   +.++++.+++++.+.+ +.+ ...+-.|.-+|.+.|+++.|.+.++.+.+..
T Consensus        31 ~~~-s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          31 PTA-TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             GGS-CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCC-CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            355 6777777777787664   4678999999988763 223 2466677888999999999999999999987

>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=93.85  E-value=0.22  Score=29.96  Aligned_cols=58  Identities=7%  Similarity=0.119  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHcCCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcccHHHHH
Q 044256            7 ALMAFGSFIRRCYRPLNDVTFNSLIKGFCMEGNIRDASQLVKKMATFGCRPNVTTCDTLI   66 (363)
Q Consensus         7 A~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l~   66 (363)
                      +.+-+..+......| ++.+..+.+++|.+.+++..|.++|+-.+.. +.++...|..++
T Consensus        25 ~rrgmN~l~~~DlVP-eP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          25 LRKGMNTLVGYDLVP-EPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHTTSSBCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHhccccCC-CcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            334444444555566 6666666666666666666666666655533 123344555444

>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=93.68  E-value=0.47  Score=30.19  Aligned_cols=67  Identities=16%  Similarity=0.114  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 044256          279 VEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEENGCA  346 (363)
Q Consensus       279 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  346 (363)
                      ...+...++...++|+-++-.+++..+.+.+ +|++.....+..+|.+.|...++.+++.+.-+.|++
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            3455667788899999999999999977754 788899999999999999999999999999998875

>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=90.72  E-value=3.3  Score=33.20  Aligned_cols=240  Identities=10%  Similarity=-0.003  Sum_probs=124.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhccCCCCCccCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcchhhhccCChHH
Q 044256           66 ITGLRRTGNMNLTLKLHQEMVNGMGDFGGIYKPNVFCYGSLIDGLCKDRLVDQTKDLFMEMKDKGINANTLLCKKTKLVE  145 (363)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (363)
                      +..+.+.++++.....+    ..       .+.+...-.....+....|+.+.|...+..+-..|...         .+.
T Consensus        79 l~~L~~~~~w~~~~~~~----~~-------~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~---------p~~  138 (450)
T d1qsaa1          79 VNELARREDWRGLLAFS----PE-------KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQ---------PNA  138 (450)
T ss_dssp             HHHHHHTTCHHHHHHHC----CS-------CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCC---------CTH
T ss_pred             HHHHHhccCHHHHHHhc----cC-------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---------chH
Confidence            45556667765544322    11       24455555567778888899888888777765544321         223


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----------------------CCCCcHhHHHH
Q 044256          146 ANRLLELMMQRGLNPVIFTYTPLLNGYCLVGKVNVAIALFDSMARK-----------------------GFMPDVFSYSV  202 (363)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----------------------~~~~~~~~~~~  202 (363)
                      ...++..+...|. .+...+-.-+......|+...|..+...+...                       ...++......
T Consensus       139 c~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~~~~~~~~~~~~~~~  217 (450)
T d1qsaa1         139 CDKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQM  217 (450)
T ss_dssp             HHHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHHHHhcCCCChhhhHH
Confidence            3444554444442 22223333334444455555555544322110                       00111122222


Q ss_pred             HHHHHHh--cCChhHHHHHHHHHHHhhHHHHHHHhHhcCCCCChHHHHHHHHH----HHhcCCHHHHHHHHHHHHhccCc
Q 044256          203 LINGYCK--NFNVEEAMNVSREMILNGFKKIFNEMKLCNVVPETFTCNIFIDG----LCKNGHVLEVMELFPTLEISNCE  276 (363)
Q Consensus       203 l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~----~~~~~~~~~a~~~~~~~~~~~~~  276 (363)
                      +..++.+  ..+.+.+...+.....            .. ..+...+..+-..    ....+..+.+...+......+  
T Consensus       218 ~~~~l~rla~~d~~~a~~~l~~~~~------------~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--  282 (450)
T d1qsaa1         218 AAVAFASVARQDAENARLMIPSLAQ------------AQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--  282 (450)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHH------------HT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHHhccChhHHHHHHHhhhh------------cc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--
Confidence            2222222  1334444433333221            11 1222222222222    233456677777777766554  


Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHHHHHhhhCCCCccHHHHHHHHHHHHccCChhHHHHHHHHHHH
Q 044256          277 LFVEIFNSLIRGCCKFGIFEIASELFNKLSCKNLVADVVAYNILIHALGKEGQIKKENYLLLSMEE  342 (363)
Q Consensus       277 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  342 (363)
                      .+.......+......++...+...+..+.... .....-.-=+.+++...|+.++|...|.....
T Consensus       283 ~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         283 QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            233444445555667789999999999886542 22233334456888999999999999999874